Patent Publication Number: US-11661608-B2

Title: Haplotypes associated with improved dicamba tolerance and glyphosate tolerance in transgenic soybean plants

Description:
CROSS-REFERENCE TO RELATED APPLICATIONS 
     This application is a divisional of U.S. patent application Ser. No. 14/402,700, filed Nov. 21, 2014, now U.S. Pat. No. 10,604,767, which is a national stage application, filed under 35 U.S.C. § 371, of International Patent Application No. PCT/US2013/042349, filed May 23, 2013, which claims the benefit of U.S. Provisional Patent Application No. 61/779,739, filed Mar. 13, 2013; U.S. Provisional Patent Application No. 61/753,725, filed Jan. 17, 2013; U.S. Provisional Patent Application No. 61/753,693, filed Jan. 17, 2013; U.S. Provisional Patent Application No. 61/650,869, filed May 23, 2012; and U.S. Provisional Patent Application No. 61/650,852, filed May 23, 2012, each of which are incorporated by reference herein in its entirety. 
    
    
     INCORPORATION OF SEQUENCE LISTING 
     A sequence listing containing the file named “46_21_59246_A_PCT.txt” which is 33,292 bytes (measured in MS-Windows®) and created on May 20, 2013, comprises 56 nucleotide sequences, is provided herewith via the USPTO&#39;s EFS system and is herein incorporated by reference in its entirety. 
     INCORPORATION OF TABLE 2 
     A listing of various soybean linkage group L (chromosome 19) markers is provided herewith in the Specification as Table 2. 
     BACKGROUND 
     International Patent Application Publication WO 2012/031097 describes genetic regions of soybean linkage group L that contain polymorphic loci that are associated with an undesirable “yellow flash” phenotype that is observed in the foliage of certain soybean varieties that comprise a transgene that confers resistance to glyphosate that are exposed to glyphosate. 
     SUMMARY 
     “Dicamba intolerance” is an undesirable phenotype observed in certain soybean varieties that comprise a transgene that can confer resistance to the broad-spectrum herbicide dicamba. After application of dicamba, it has been discovered that the leaves of certain soybean plant varieties comprising the transgene that confers resistance to dicamba can exhibit a “dicamba intolerance phenotype” comprising malformation (epinasty) of the main stem and petioles upon exposure to dicamba. The epinastic growth habit of such “dicamba intolerant” transgenic plants is manifest in pronounced bending/twisting of the main stem and petioles. In dicamba intolerant transgenic soybean plants exposed to dicamba, the upper nodes and petioles may die, but lower portion of the plant may remain vegetative and new growth can be limited. However, other soybean plant varieties containing the same transgene that confers resistance to dicamba do not exhibit the dicamba intolerance phenotype when co-exposed to the same dosage of dicamba. The dicamba intolerance phenotype can be observed within approximately 2 to 10 days after herbicide application in certain soybean varieties comprising the transgene that confers resistance to dicamba. The dicamba intolerance phenotype is undesirable as it can lead to reduced yield in certain transgenic soybean plant varieties exposed to dicamba. 
     Although the dicamba intolerance phenotype can be observed within approximately 2 to 10 days after dicamba application in certain soybean varieties comprising the transgene that confers dicamba resistance, distinct soybean varieties that comprise the same dicamba resistance transgene integrated at the same chromosomal locus (i.e. the same transgenic event) can show various degrees of dicamba intolerance upon exposure to high doses of dicamba. Some varieties comprising the dicamba resistance transgene insertion are highly tolerant to high dosages of dicamba, showing no dicamba intolerance phenotype (i.e. a “dicamba tolerance phenotype”), while other varieties comprising the same dicamba resistance transgene insertion are highly susceptible to high dosages of dicamba, showing a severe dicamba intolerance phenotype. Provided herein are soybean plants comprising an introgressed genomic region associated with a dicamba tolerance phenotype. Also provided herein are markers that reside outside of a genomic region associated with a dicamba tolerance phenotype and that facilitate breeding activities that include, but are not limited to, introgression of this genomic region. Markers and specific alleles thereof that are associated with a dicamba tolerance phenotype are also provided. Methods of obtaining a soybean plant that exhibits a dicamba tolerance phenotype and methods of obtaining a soybean plant comprising in its genome at least one dicamba tolerance locus are also provided. Methods that provide for the introgression of a genomic region associated with a dicamba tolerance phenotype into soybean germplasm that has a genomic region associated with a dicamba intolerance phenotype are also provided. Identification of molecular markers associated with loci that confer the dicamba tolerance phenotype has significant economic value. By using markers associated with the dicamba tolerance trait, breeders can select soybean varieties with the favorable alleles (i.e. alleles that are not associated with the dicamba intolerance trait) for use in trait integration. They can also use the markers to help them eliminate unfavorable alleles (i.e. alleles that are associated with the dicamba intolerance trait) in soybeans. In certain embodiments, commercially desirable transgenic soybean lines that carry a genomic region that is associated with a “dicamba tolerance” phenotype and tolerate high dosages of dicamba are thus provided. 
     It has also been surprisingly observed that soybean plants comprising the dicamba tolerance loci, a transgene conferring resistance to dicamba, and a transgene conferring resistance to glyphosate also exhibit improved reproductive tolerance to glyphosate application relative to plants with the same two transgenes that lack the dicamba tolerance loci. Although the glyphosate reproductive intolerance phenotype can be observed after late stage (i.e. V6/R1) glyphosate application in certain soybean varieties comprising the transgenes that confer dicamba and glyphosate resistance, distinct soybean varieties that comprise the same dicamba and glyphosate resistance transgene integrated at the same chromosomal loci (i.e. the same transgenic events) can show various degrees of glyphosate reproductive intolerance (i.e. varying degrees of sterility) upon such exposure to glyphosate. Some varieties comprising the dicamba and glyphosate resistance transgene insertions are highly tolerant to late stage glyphosate application, showing no sterility phenotype (i.e. a “glyphosate reproductive intolerance phenotype”), while other varieties comprising the same dicamba and glyphosate resistance transgene insertions are highly susceptible to late stage glyphosate application, showing varying levels of sterility. Provided herein are soybean plants comprising an introgressed genomic region associated with a dicamba tolerance phenotype that also provide for reproductive tolerance to glyphosate. Also provided herein are markers that reside outside of a genomic region associated with a dicamba tolerance/reproductive tolerance to glyphosate phenotype and that facilitate breeding activities that include, but are not limited to, introgression of this genomic region. Markers and specific alleles thereof that are associated with a dicamba tolerance/reproductive tolerance to glyphosate are also provided. Methods of obtaining a soybean plant that exhibits reproductive tolerance to glyphosate and methods of obtaining a soybean plant comprising in its genome at least one dicamba tolerance/reproductive tolerance to glyphosate locus are also provided. Methods that provide for the introgression of a genomic region associated with reproductive tolerance to glyphosate into soybean germplasm that has a genomic region associated with a reproductive tolerance to glyphosate are also provided. Identification of molecular markers associated with loci that confer reproductive tolerance to glyphosate has significant economic value. By using markers associated with the reproductive tolerance to glyphosate trait, breeders can select soybean varieties with the favorable alleles (i.e. alleles that are not associated with the glyphosate reproductive intolerance trait) for use in trait integration. They can also use the markers to help them eliminate unfavorable alleles (i.e. alleles that are associated with the glyphosate reproductive intolerance trait) in soybeans. In certain embodiments, commercially desirable transgenic soybean lines that carry a genomic region that is associated with a “glyphosate reproductive tolerance” phenotype and tolerate late stage (i.e. V6/R1) application of glyphosate are thus provided. 
     Methods of identifying a soybean plant that comprises a genotype associated with a dicamba tolerance phenotype and/or a glyphosate reproductive tolerance phenotype are thus provided. 
     In certain embodiments, the plurality of soybean plants comprises a population that is obtained by: i) crossing a parent plant comprising at least one dicamba tolerance locus with a parent plant comprising at least one dicamba intolerance locus; or, ii) obtaining seed or progeny from a parental plant segregating for at least one dicamba tolerance locus. In certain embodiments, the population contains plants that comprise a transgene that confers resistance to dicamba. In certain embodiments, the aforementioned methods can further comprise the step of assaying for the presence of at least one additional marker, where the additional marker is either linked or unlinked to the linkage group L genomic region. In certain embodiments of the aforementioned methods, the plurality of soybean plants, the soybean plant, and/or progeny thereof are exposed to a dosage of dicamba sufficient to cause dicamba intolerance in a susceptible variety. In certain embodiments of the aforementioned methods, a plant that exhibits a dicamba tolerance phenotype is selected. 
     Also provided herewith are methods for producing a soybean plant comprising in its genome at least one introgressed dicamba tolerance locus. Also provided herewith are soybean plants comprising an introgressed dicamba tolerance locus made by the aforementioned methods. In certain embodiments, a soybean plant comprising an introgressed dicamba tolerance locus and one or more polymorphic loci comprising alleles or combinations of alleles that are not found in a dicamba tolerant soybean variety and that are linked to the introgressed dicamba tolerance locus, where the plant is produced by the aforementioned methods are provided. 
     Also provided are soybean plants comprising an introgressed dicamba tolerance locus and one or more polymorphic loci comprising alleles or combinations of alleles that are not found in a dicamba tolerant soybean variety and that are linked to the introgressed dicamba tolerance locus. 
     Methods of identifying a soybean plant that comprises a genotype associated with dicamba tolerance and/or reproductive tolerance to glyphosate are thus provided. In certain embodiments, the methods can comprise detecting in a soybean plant an allele in at least one genetic locus associated with dicamba tolerance and/or reproductive tolerance to glyphosate, where the genetic locus is in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12), and denoting that the plant comprises a genotype associated with dicamba tolerance. In certain embodiments, the methods can further comprise the step of selecting the denoted plant from a population of plants. In certain embodiments, the plant comprises a transgene that confers resistance to dicamba and/or a transgene that confers resistance to glyphosate. In certain embodiments, the soybean plant or progeny thereof is exposed to a dosage of dicamba sufficient to cause a deleterious effect in a susceptible variety comprising the transgene and/or is exposed to a dosage of glyphosate sufficient to cause sterility in a susceptible variety comprising the transgene(s). In certain embodiments of any of the aforementioned methods, a plant that exhibits dicamba tolerance and/or reproductive tolerance to glyphosate is selected. In certain embodiments of any of the aforementioned methods, a genotype associated with a dicamba tolerance comprises at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region that is flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8) is provided. In certain embodiments of any of the aforementioned methods, the genotype associated with dicamba tolerance comprises at least one polymorphic allele of at least one marker in the linkage group L region selected from the group consisting of a TT allele M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). 
     Methods for obtaining a soybean plant comprising in its genome at least one dicamba tolerance locus are also provided. In certain embodiments, these methods can compromise the steps of: (a) genotyping a plurality of soybean plants with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12); and, (b) selecting a soybean plant comprising in its genome at least one genetic locus comprising a genotype associated with dicamba tolerance. In certain embodiments of these methods, the genotype associated with dicamba tolerance comprises at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8). In certain embodiments of any of these aforementioned methods, the genotype associated with dicamba tolerance comprises at least one polymorphic allele of at least one marker in the first linkage group L region, the first sub-region, the second sub-region, or the third sub-region, where the marker is selected from the group consisting of a TT allele M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of these methods, the plurality of soybean plants comprises a population that is obtained by: i) crossing a parent plant comprising at least one dicamba tolerance locus with a parent plant comprising at least one dicamba sensitivity locus; or, ii) obtaining seed or progeny from a parental plant segregating for at least one dicamba tolerance locus. In certain embodiments of these methods, the population contains plants that comprise at least one transgene that confers resistance to dicamba and/or a transgene that confers resistance to glyphosate. In certain embodiments of any of the aforementioned methods, the methods can further comprise the step of assaying for the presence of at least one additional marker, where the additional marker is either linked or unlinked to the linkage group L genomic region. In certain embodiments of any of the aforementioned methods, the plurality of soybean plants, the soybean plant, and/or progeny thereof are exposed to a dosage of dicamba sufficient to cause a deleterious effect in a susceptible variety comprising the transgene and/or is exposed to a dosage of glyphosate sufficient to cause sterility in a susceptible variety comprising the transgene. In certain embodiments of any of the aforementioned methods, a plant that exhibits dicamba tolerance and/or reproductive tolerance to glyphosate is selected. 
     Methods for producing a soybean plant comprising in its genome at least one introgressed dicamba tolerance locus are also provided. In certain embodiments, these methods comprise the steps of: (a) crossing a first soybean plant with a dicamba tolerance locus with a second soybean plant comprising: a dicamba sensitivity locus in a first linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8) and at least one linked polymorphic locus not present in the first soybean plant to obtain a population segregating for the dicamba tolerance loci and the linked polymorphic locus; (b) detecting at least two polymorphic nucleic acids in at least one soybean plant from the population, where at least one of the polymorphic nucleic acids is located in the first linkage group L region and/or the second linkage group L region and where at least one of the polymorphic amino acids is a linked polymorphic locus not present in the first soybean plant; and (c) selecting a soybean plant comprising a genotype associated with dicamba tolerance and at least one linked marker found in the second soybean plant comprising a dicamba sensitivity locus but not in the first soybean plant, thereby obtaining a soybean plant comprising in its genome at least one introgressed dicamba tolerance locus. In certain embodiments of these methods, at least one of the first or the second soybean plants comprises a transgene that confers resistance to dicamba and/or a transgene that confers resistance to glyphosate. In certain embodiments of these methods, the population, the selected soybean plant, and/or progeny of selected soybean plant is exposed to a dosage of dicamba sufficient to cause a deleterious effect in a susceptible variety comprising the transgene and/or is exposed to a dosage of glyphosate sufficient to cause sterility in a susceptible variety comprising the transgene. In certain embodiments of these methods, the polymorphic nucleic acid detected in step (b) is detected with at least one marker selected from the group consisting of M0205350 (SEQ ID NO: 10), M0101742 (SEQ ID NO: 5), M0102027 (SEQ ID NO: 11), and NGMAX008197032 (SEQ ID NO:52). In certain embodiments of these methods, the polymorphic nucleic acid detected in step (b) comprises a TT allele of M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of these methods, the polymorphic nucleic acid detected in step (b) is detected with marker M0205350 (SEQ ID NO: 10) or M0102027 (SEQ ID NO: 11). In certain embodiments of these methods, the polymorphic nucleic acids are detected with marker M0101742 (SEQ ID NO: 5). In certain embodiments of these methods, the polymorphic nucleic acids are detected with marker NGMAX008197032 (SEQ ID NO:52). In certain embodiments of any of the aforementioned methods, the linked polymorphic locus is detected with a genotypic marker, a phenotypic marker, or both. In certain embodiments of these methods, the linked polymorphic locus is detected with a marker that is located within about 1000, 500, 100, 40, 20, 10, or 5 kilobases (Kb) of the dicamba tolerance locus. In certain embodiments of these methods, the linked polymorphic locus is detected with at least one marker selected from the group consisting of asmbl_11856 (SEQ ID NO: 1), TC122822 (SEQ ID NO: 2), BI967232 (SEQ ID NO: 3), M0205537 (SEQ ID NO: 15), M0202715 (SEQ ID NO: 16), M0206286 (SEQ ID NO: 17), M0206054 (SEQ ID NO: 18), and M0205375 (SEQ ID NO: 19). 
     Transgenic soybean plants comprising introgressed linkage group L regions comprising at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region that flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8), where the polymorphic alleles are associated with dicamba tolerance and/or reproductive tolerance to glyphosate, and where the plant comprises a transgene that confers resistance to dicamba are also provided. In certain embodiments, the polymorphic alleles comprise a TT allele of M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments, the transgenic plant exhibits dicamba tolerance. In certain embodiments, the transgenic plant further comprises a transgene that confers resistance to glyphosate and exhibits reproductive tolerance to glyphosate. In certain embodiments of any one of the aforementioned methods, the plant further comprises at least one of a 2,4-D, glufosinate, bromoxynil, acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase), hydroxyphenyl pyruvate dioxygenase (HPPD), or sulfonylurea herbicide resistance transgenes and/or at least one transgene selected from the group of transgenes conferring insect resistance, nematode resistance, fungal resistance, an improvement in seed oil quantity, an improvement in seed oil quality, abiotic stress resistance, and intrinsic yield increases. In certain embodiments, the insect resistance conferring transgene is a transgene that expresses an insecticidal  Bacillus thuringiensis  protein. 
     Also provided herein are soybean plants comprising a dicamba tolerance locus, a transgene conferring resistance to glyphosate, a transgene conferring resistance to dicamba, where the plants exhibit both improved dicamba tolerance and improved reproductive tolerance to glyphosate relative to soybean plants comprising the same two transgenes but lacking the dicamba tolerance locus. Such improved reproductive tolerance to glyphosate is reflected in reduced sterility when the plants are exposed to glyphosate. 
     In certain embodiments, the dicamba tolerance locus provided herein can provide for improved performance of additional combinations of transgenic traits (i.e. “stacked transgenic traits”) in soybean plants. In such embodiments, the dicamba tolerance locus provided herein can be alternatively referred to and considered a “stacked transgenic trait improvement” locus. Allele(s) of the dicamba tolerance locus or “stacked transgenic trait improvement” locus that do not confer such dicamba tolerance or such stacked transgenic trait improvements are referred to herein as dicamba sensitivity or “stacked transgenic trait sensitivity” loci. Transgenic plants comprising the stacked transgenic trait improvement locus provided herein exhibit improved performance of both transgenes present in the transgenic plant relative to plants comprising the same two transgenes that lack the stacked transgenic trait improvement locus. Such improved performance can manifest in any of enhanced transgenic trait performance, increased transgene efficacy, and/or increased transgene expression. Transgenic plants comprising the stacked trait improvement locus and two transgenes are thus provided herein. Thus, in certain embodiments the two independent and distinct transgenes that exhibit improved performance in the presence of the stacked transgenic trait improvement locus both contribute to the same trait. In certain embodiments, this same trait is selected from the group consisting of resistance to a single herbicide, resistance to an insect, resistance to a nematode, resistance to a fungal disease, resistance to an abiotic stress, an improvement in seed oil quantity, an improvement in seed oil quality, and intrinsic yield increases. In certain embodiments, the two transgenes can contribute to the same herbicide resistance trait where the herbicide resistance is selected from the group consisting of glyphosate, dicamba, 2,4-D, glufosinate, bromoxynil, synthetic auxins, and inhibitors of acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase) and hydroxyphenyl pyruvate dioxygenase (HPPD) resistance. In certain embodiments, the two transgenes can contribute to the same insect, fungal, or nematode resistance trait where the resistance to the same insect, fungal, or nematode pest is by a different mode of action to provide for improved pest resistance management. In other embodiments, the two transgenes can be two independent and distinct transgenes that encode different genes but contribute to a different trait. In certain embodiments, this different trait is independently selected from the group consisting of resistance to one or more herbicide(s), resistance to one or more insect(s), resistance to one or more nematode(s), resistance to one or more fungal disease(s), resistance to one or more abiotic stress(es), one or more improvement(s) in seed oil quantity or quantities, one or more improvement(s) in seed oil quality or qualities, intrinsic yield increases, and combinations thereof. In certain embodiments the stacked trait improvement locus is an herbicide tolerance locus that provides for improved tolerance to at least two distinct herbicides in plants comprising at least two transgenes that respectively confer resistance to those two herbicides. In certain embodiments, the herbicide tolerance locus provides for improved tolerance to at least two herbicides selected from the group consisting of glyphosate, dicamba, 2,4-D, glufosinate, bromoxynil, synthetic auxins, and inhibitors of acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase) and hydroxyphenyl pyruvate dioxygenase (HPPD) resistance in plants comprising at least two transgenes that confer resistance to those two herbicides. In certain embodiments, the herbicide tolerance locus confers improved tolerance to dicamba, improved reproductive tolerance to glyphosate, and improved tolerance to a synthetic auxin that includes, but is not limited to 2, 4-D, in a plant comprising transgenes that confer resistance to dicamba, glyphosate, and the synthetic auxin that includes, but is not limited to 2, 4-D. In certain embodiments, the two transgenes can confer a distinct herbicide resistance trait where the herbicide resistance is selected from the group consisting of glyphosate, dicamba, 2,4-D, glufosinate, bromoxynil, synthetic auxins other than 2,4-D, acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase) and hydroxyphenyl pyruvate dioxygenase (HPPD) resistance. Provided herein are soybean plants comprising any combination of a stacked trait improvement locus and at least two transgenes conferring herbicide tolerance selected from the group consisting of glyphosate, dicamba, 2,4-D, glufosinate, bromoxynil, synthetic auxins, and inhibitors of acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase) and hydroxyphenyl pyruvate dioxygenase (HPPD). In certain embodiments, soybean plants comprising an introgressed stacked trait improvement locus, at least one transgene selected from the group consisting of glyphosate, dicamba, 2,4-D, glufosinate, bromoxynil, synthetic auxins other than 2,4-D, acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase), hydroxyphenyl pyruvate dioxygenase (HPPD), and sulfonylurea herbicide resistance transgenes, and at least one transgene selected from the group of transgenes conferring insect resistance, nematode resistance, fungal resistance, an improvement in seed oil quantity, an improvement in seed oil quality, abiotic stress resistance, and intrinsic yield increases are provided. In still other embodiments, soybean plants comprising an introgressed stacked trait improvement locus, at least one transgene selected from the group consisting of glyphosate, dicamba, 2,4-D, and at least one transgene conferring resistance to an insect are provided. In still other embodiments, soybean plants comprising an introgressed stacked trait improvement locus, at least one transgene selected from the group consisting of glyphosate, dicamba, glufosinate, and 2,4-D resistance conferring transgenes, and at least one transgene conferring resistance to an insect that encodes a  Bacillus thuringiensis  toxin are provided. In certain embodiments, soybean plants comprising an introgressed stacked trait improvement locus, a glyphosate and a dicamba resistance conferring transgene, and a cry1Ac insect resistance transgene are provided. In still other embodiments, soybean plants comprising at least one herbicide resistance transgene selected from the group consisting of a dicamba resistance conferring transgene. a glyphosate resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and/or at least one transgene encoding a product that confers insect resistance selected from the group consisting of a dsRNA that inhibits a target gene of an insect pest, a patatin, a  Bacillus thuringiensis  insecticidal protein, a  Xenorhabdus  insecticidal protein, a  Photorhabdus  insecticidal protein, a  Bacillus laterosporous  insecticidal protein, a  Bacillus sphaericus  insecticidal protein, and a lignin are provided. 
     Methods of identifying a soybean plant that comprises a genotype associated with stacked transgenic trait improvement are thus provided. In certain embodiments, the methods can comprise detecting in a soybean plant an allele in at least one genetic locus associated with stacked transgenic trait improvement, where the genetic locus is in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12), and denoting that the plant comprises a genotype associated with stacked transgenic trait improvement. In certain embodiments, the methods can further comprise the step of selecting the denoted plant from a population of plants. In certain embodiments, the plant comprises at least two transgenes that contribute to the same trait. In certain embodiments, this same trait is selected from the group consisting of resistance to a single herbicide, resistance to an insect, resistance to a nematode, resistance to a fungal disease, resistance to an abiotic stress, an improvement in seed oil quantity, an improvement in seed oil quality, and intrinsic yield increases. In certain embodiments, the plant comprises at least two transgenes that contribute to different traits. In certain embodiments, this different trait is independently selected from the group consisting of resistance to one or more herbicide(s), resistance to one or more insect(s), resistance to one or more nematode(s), resistance to one or more fungal disease(s), resistance to one or more abiotic stress(es), one or more improvement(s) in seed oil quantity or quantities, one or more improvement(s) in seed oil quality or qualities, intrinsic yield increases, and combinations thereof. In certain embodiments, the soybean plant or progeny thereof is exposed to a dosage of an herbicide sufficient to cause a deleterious effect in a susceptible variety comprising the transgene conferring resistance to that herbicide but lacking the stacked transgenic trait improvement locus. In certain embodiments of any of the aforementioned methods, a plant that exhibits stacked transgenic trait improvement is selected. In certain embodiments of any of the aforementioned methods, a genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region that is flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8) is provided. In certain embodiments of any of the aforementioned methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in the linkage group L region selected from the group consisting of a TT allele M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). 
     Methods for obtaining a soybean plant comprising in its genome at least one stacked transgenic trait improvement locus are also provided. In certain embodiments, these methods can compromise the steps of: (a) genotyping a plurality of soybean plants with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12); and, (b) selecting a soybean plant comprising in its genome at least one genetic locus comprising a genotype associated with stacked transgenic trait improvement. In certain embodiments, the plant comprises at least two transgenes that contribute to the same trait. In certain embodiments, this same trait is selected from the group consisting of resistance to a single herbicide, resistance to an insect, resistance to a nematode, resistance to a fungal disease, resistance to an abiotic stress, an improvement in seed oil quantity, an improvement in seed oil quality, and intrinsic yield increases. In certain embodiments, the plant comprises at least two transgenes that contribute to different traits. In certain embodiments, this different trait is independently selected from the group consisting of resistance to one or more herbicide(s), resistance to one or more insect(s), resistance to one or more nematode(s), resistance to one or more fungal disease(s), resistance to one or more abiotic stress(es), one or more improvement(s) in seed oil quantity or quantities, one or more improvement(s) in seed oil quality or qualities, intrinsic yield increases, and combinations thereof. In certain embodiments of these methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8). In certain embodiments of any of these aforementioned methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in the first linkage group L region, the first sub-region, the second sub-region, the third sub-region, where the marker is selected from the group consisting of a TT allele M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of these methods, the plurality of soybean plants comprises a population that is obtained by: i) crossing a parent plant comprising at least one stacked transgenic trait improvement locus with a parent plant lacking a stacked transgenic trait improvement locus; or, ii) obtaining seed or progeny from a parental plant segregating for at least one stacked transgenic trait improvement locus. In certain embodiments of any of the aforementioned methods, the methods can further comprise the step of assaying for the presence of at least one additional marker, where the additional marker is either linked or unlinked to the linkage group L genomic region. In certain embodiments of any of the aforementioned methods, the plurality of soybean plants, the soybean plant, and/or progeny thereof are exposed to a dosage of an herbicide sufficient to cause a deleterious effect in a susceptible variety comprising the transgene conferring resistance to that herbicide but lacking the stacked transgenic trait improvement locus. In certain embodiments of any of the aforementioned methods, a plant that exhibits stacked transgenic trait improvement is selected. 
     Methods for producing a soybean plant comprising in its genome at least one introgressed stacked transgenic trait improvement locus are also provided. In certain embodiments, these methods comprise the steps of: (a) crossing a first soybean plant with a stacked transgenic trait improvement locus with a second soybean plant lacking a stacked transgenic trait improvement locus in a first linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8) and at least one linked polymorphic locus not present in the first soybean plant to obtain a population segregating for the stacked transgenic trait improvement loci and the linked polymorphic locus; (b) detecting at least two polymorphic nucleic acids in at least one soybean plant from the population, where at least one of the polymorphic nucleic acids is located in the first linkage group L region and/or the second linkage group L region and where at least one of the polymorphic amino acids is a linked polymorphic locus not present in the first soybean plant; and (c) selecting a soybean plant comprising a genotype associated with stacked transgenic trait improvement and at least one linked marker found in the second soybean plant lacking the stacked transgenic trait improvement locus but not found in the first soybean plant, thereby obtaining a soybean plant comprising in its genome at least one introgressed stacked transgenic trait improvement locus. In certain embodiments, the first and/or second plant comprises at least two transgenes that contribute to the same trait. In certain embodiments, this same trait is selected from the group consisting of resistance to a single herbicide, resistance to an insect, resistance to a nematode, resistance to a fungal disease, resistance to an abiotic stress, an improvement in seed oil quantity, an improvement in seed oil quality, and intrinsic yield increases. In certain embodiments, the plant comprises at least two transgenes that contribute to different traits. In certain embodiments, this different trait is independently selected from the group consisting of resistance to one or more herbicide(s), resistance to one or more insect(s), resistance to one or more nematode(s), resistance to one or more fungal disease(s), resistance to one or more abiotic stress(es), one or more improvement(s) in seed oil quantity or quantities, one or more improvement(s) in seed oil quality or qualities, intrinsic yield increases, and combinations thereof. In certain embodiments of these methods, the population, the selected soybean plant, and/or progeny of selected soybean plant is exposed to a dosage of an herbicide sufficient to cause a deleterious effect in a susceptible variety comprising the transgene that confers resistance to the herbicide but lacking the stacked transgenic trait improvement locus. In certain embodiments of these methods, the polymorphic nucleic acid detected in step (b) is detected with at least one marker selected from the group consisting of M0205350 (SEQ ID NO: 10), M0101742 (SEQ ID NO: 5), M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of these methods, the polymorphic nucleic acid detected in step (b) comprises a TT allele of M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11) and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of these methods, the polymorphic nucleic acid detected in step (b) is detected with marker M0205350 (SEQ ID NO: 10), M0102027 (SEQ ID NO: 11) or NGMAX008197032 (SEQ ID NO: 52). In certain embodiments of these methods, the polymorphic nucleic acids are detected with marker M0101742 (SEQ ID NO: 5). In certain embodiments of these methods, the polymorphic nucleic acids are detected with marker NGMAX008197032 (SEQ ID NO:52). In certain embodiments of any of the aforementioned methods, the linked polymorphic locus is detected with a genotypic marker, a phenotypic marker, or both. In certain embodiments of these methods, the linked polymorphic locus is detected with a marker that is located within about 1000, 500, 100, 40, 20, 10, or 5 kilobases (Kb) of the stacked transgenic trait improvement locus. In certain embodiments of these methods, the linked polymorphic locus is detected with at least one marker selected from the group consisting of asmbl_11856 (SEQ ID NO: 1), TC122822 (SEQ ID NO: 2), BI967232 (SEQ ID NO: 3), M0205537 (SEQ ID NO: 15), M0202715 (SEQ ID NO: 16), M0206286 (SEQ ID NO: 17), M0206054 (SEQ ID NO: 18), and M0205375 (SEQ ID NO: 19). 
     Transgenic soybean plants comprising introgressed linkage group L regions comprising at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region that flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8), where the polymorphic alleles are associated with a stacked transgenic trait improvement locus, and where the plant comprises: (a) at least two transgenes that contribute to the same trait; or, (b) at least two transgenes that contribute different traits. In certain embodiments, this same trait is selected from the group consisting of resistance to a single herbicide, resistance to an insect, resistance to a nematode, resistance to a fungal disease, resistance to an abiotic stress, an improvement in seed oil quantity, an improvement in seed oil quality, and intrinsic yield increases. In certain embodiments, this different trait is independently selected from the group consisting of resistance to one or more herbicide(s), resistance to one or more insect(s), resistance to one or more nematode(s), resistance to one or more fungal disease(s), resistance to one or more abiotic stress(es), one or more improvement(s) in seed oil quantity or quantities, one or more improvement(s) in seed oil quality or qualities, intrinsic yield increases, and combinations thereof. In certain embodiments, the polymorphic alleles comprise a TT allele of M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments, the transgenic plant exhibits a stacked transgenic trait improvement. In certain embodiments, the transgenic plant further comprises a transgene that confers resistance to glyphosate and exhibits reproductive tolerance to glyphosate. In certain embodiments of any one of the aforementioned methods, the plant further comprises at least one of a 2,4-D, glufosinate, bromoxynil, synthetic auxins other than 2,4-D, acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase), hydroxyphenyl pyruvate dioxygenase (HPPD), or sulfonylurea herbicide resistance transgenes and/or at least one transgene selected from the group of transgenes conferring insect resistance, nematode resistance, fungal resistance, an improvement in seed oil quantity, an improvement in seed oil quality, abiotic stress resistance, and intrinsic yield increases. 
     Also provided herein are methods of identifying a soybean plant that comprises a genotype associated with stacked transgenic trait improvement, comprising: detecting in a soybean plant an allele in at least one genetic locus associated with stacked transgenic trait improvement, wherein the genetic locus is in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12), and denoting that the plant comprises a genotype associated with stacked transgenic trait improvement. In certain embodiments, the method further comprises the step of selecting the denoted plant from a population of plants and wherein the detection is performed either before or after the selection. In certain embodiments, the denoted plant comprises at least one transgene that confer resistance to an herbicide and is selected for improved tolerance to that herbicide. In certain embodiments, the selection comprises exposing the population of plants to a dosage of herbicide sufficient to cause a deleterious effect in a susceptible variety comprising the transgene that confers resistance to the herbicide. In certain embodiments: (i) the plants comprise an herbicide resistance transgene selected from the group consisting of a dicamba resistance conferring transgene, a glyphosate resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene; and (ii) the plants comprising the herbicide resistance transgene are exposed to a dosage of a corresponding herbicide selected from the group consisting of dicamba, glyphosate, glufosinate, and 2,4-D that is sufficient to cause a deleterious effect in a susceptible variety comprising the herbicide resistant transgene that confers resistance to the corresponding herbicide. In certain embodiments, the stacked transgenic trait improvement is independently selected from the group consisting of an improvement in transgene-mediated resistance to one or more herbicide(s), an improvement in transgene-mediated resistance to one or more insect(s), an improvement in transgene-mediated resistance to one or more nematode(s), an improvement in transgene-mediated resistance to one or more fungal disease(s), an improvement in transgene-mediated resistance to one or more abiotic stress(es), in one or more improvement(s) in transgene-mediated seed oil quantity trait(s), one or more improvement(s) in seed oil quality trait(s), an improvement in transgene-mediated intrinsic yield increases, and combinations thereof. In certain embodiments, the denoted plant comprises at least one herbicide resistance transgene and/or at least one insect resistance conferring transgene that encodes a  Bacillus thuringiensis  toxin. In certain embodiments, the denoted plant comprises at least one herbicide resistance transgene selected from the group consisting of a dicamba resistance conferring transgene. a glyphosate resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and/or at least one transgene encoding a product that confers insect resistance selected from the group consisting of a dsRNA that inhibits a target gene of an insect pest, a patatin, a  Bacillus thuringiensis  insecticidal protein, a  Xenorhabdus  insecticidal protein, a  Photorhabdus  insecticidal protein, a  Bacillus laterosporous  insecticidal protein, a  Bacillus sphaericus  insecticidal protein, and a lignin. In certain embodiments of any of the preceding methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region that is flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8). In certain embodiments of any of the preceding methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in the linkage group L region selected from the group consisting of a TT allele M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). 
     Also provided are methods for obtaining a soybean plant comprising in its genome at least one stacked transgenic trait improvement locus, compromising the steps of: genotyping a plurality of soybean plants with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12); and selecting a soybean plant comprising in its genome at least one genetic locus comprising a genotype associated with stacked transgenic trait improvement. In certain embodiments of the methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8). In certain embodiments of any of the preceding methods, the genotype associated with stacked transgenic trait improvement comprises at least one polymorphic allele of at least one marker in the first linkage group L region, the first sub-region, or the second sub-region, wherein the marker is selected from the group consisting of a TT allele M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of the methods, the plurality of soybean plants comprises a population that is obtained by: i) crossing a parent plant comprising at least one stacked transgenic trait improvement locus with a parent plant comprising at least one stacked transgenic trait sensitivity locus; or, ii) obtaining seed or progeny from a parental plant segregating for at least one stacked transgenic trait improvement locus. In certain embodiments of the methods, the population contains plants that comprise at least one transgene that confers resistance to an herbicide and the stacked transgenic trait improvement comprises improved tolerance to a corresponding herbicide. In certain embodiments of any of the preceding methods, the methods further comprise the step of assaying for the presence of at least one additional marker, wherein the additional marker is either linked or unlinked to the linkage group L genomic region. In certain embodiments of any of the preceding methods, the plurality of soybean plants, the soybean plant, and/or progeny thereof are exposed to a dosage of herbicide sufficient to cause a deleterious effect in a susceptible variety comprising the transgene that confers resistance to the herbicide. In certain embodiments of any of the preceding methods, a plant that exhibits dicamba tolerance and/or reproductive tolerance to glyphosate and/or glufosinate tolerance and/or 2,4-D tolerance is selected. In certain embodiments of any of the preceding methods, the stacked transgenic trait improvement is selected from the group consisting of an improvement in transgene-mediated resistance to one or more herbicide(s), an improvement in transgene-mediated resistance to one or more insect(s), an improvement in transgene-mediated resistance to one or more nematode(s), an improvement in transgene-mediated resistance to one or more fungal disease(s), an improvement in transgene-mediated resistance to one or more abiotic stress(es), in one or more improvement(s) in transgene-mediated seed oil quantity trait(s), one or more improvement(s) in seed oil quality trait(s), an improvement in transgene-mediated intrinsic yield increases, and combinations thereof. 
     Also provided herein are methods for producing a soybean plant comprising in its genome at least one introgressed stacked transgenic trait improvement locus comprising the steps of: crossing a first soybean plant with a stacked transgenic trait improvement locus with a second soybean plant comprising: a stacked transgenic trait sensitivity locus in a first linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8) and at least one linked polymorphic locus not present in the first soybean plant to obtain a population segregating for the stacked transgenic trait improvement loci and the linked polymorphic locus; detecting at least two polymorphic nucleic acids in at least one soybean plant from the population, wherein at least one of the polymorphic nucleic acids is located in the first linkage group L region and/or the second linkage group L region and at least one of the polymorphic amino acids is a linked polymorphic locus not present in the first soybean plant; and selecting a soybean plant comprising a genotype associated with stacked transgenic trait improvement and at least one linked marker found in the second soybean plant comprising a stacked transgenic trait sensitivity locus but not in the first soybean plant, thereby obtaining a soybean plant comprising in its genome at least one introgressed stacked transgenic trait improvement locus. In certain embodiments of the methods, at least one of the first or the second soybean plants comprises a transgene that confers resistance to an herbicide. In certain embodiments of the methods, the population, the selected soybean plant, and/or progeny of selected soybean plant is exposed to a dosage of herbicide sufficient to cause a deleterious effect in a susceptible variety comprising the transgene that confers resistance to a corresponding herbicide. In certain embodiments of the methods, the polymorphic nucleic acid detected in step (b) is detected with at least one marker selected from the group consisting of M0205350 (SEQ ID NO: 10), M0101742 (SEQ ID NO: 5), M0102027 (SEQ ID NO: 11), and NGMAX008197032 (SEQ ID NO:52). In certain embodiments of the methods, the polymorphic nucleic acid detected in step (b) comprises a TT allele of M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of the methods, the polymorphic nucleic acid detected in step (b) is detected with marker M0205350 (SEQ ID NO: 10), M0102027 (SEQ ID NO: 11), or marker NGMAX008197032 (SEQ ID NO:52). In certain embodiments of the methods, the polymorphic nucleic acids are detected with marker M0101742 (SEQ ID NO: 5). In certain embodiments of any of the preceding methods, the linked polymorphic locus is detected with a genotypic marker, a phenotypic marker, or both. In certain embodiments, the linked polymorphic locus is detected with a marker that is located within about 1000, 500, 100, 40, 20, 10, or 5 kilobases (Kb) of the stacked transgenic trait improvement locus. In certain embodiments, the linked polymorphic locus is detected with at least one marker selected from the group consisting of asmbl_11856 (SEQ ID NO: 1), TC122822 (SEQ ID NO: 2), BI967232 (SEQ ID NO: 3), M0205537 (SEQ ID NO: 15), M0202715 (SEQ ID NO: 16), M0206286 (SEQ ID NO: 17), M0206054 (SEQ ID NO:18), and M0205375 (SEQ ID NO: 19). 
     Also provided are transgenic soybean plants comprising introgressed linkage group L regions comprising at least one polymorphic allele of at least one marker in a first sub-region of the linkage group L region that flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6) and/or at least one polymorphic allele of at least one marker in a second sub-region of the linkage group L region that is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) and/or at least one polymorphic allele of at least one marker in a third sub-region of the linkage group L region that is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8), wherein the polymorphic alleles are associated with stacked transgenic trait improvement and wherein the plant comprises at least one transgene. In certain embodiments, the transgene confers resistance to an herbicide. In certain embodiments, the polymorphic alleles comprise a TT allele of M0205350 (SEQ ID NO: 10), a TT allele of M0101742 (SEQ ID NO: 5), a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). In certain embodiments of any of the preceding methods, the plant exhibits tolerance to at least one herbicide. In certain embodiments, the plant comprises: i) a transgene that confers resistance to glyphosate and exhibits reproductive tolerance to glyphosate; and/or (ii) a dicamba resistance conferring transgene and exhibits dicamba tolerance; and/or (iii) a glufosinate resistance conferring transgene and exhibits glufosinate tolerance; and/or (iv) a 2,4-D resistance conferring transgene and exhibits 2,4-D tolerance. In certain embodiments, the plant comprises at least one transgene conferring resistance to a herbicide selected from the group consisting of dicamba, 2,4-D, glufosinate, bromoxynil, synthetic auxins other than 2,4-D, acetolactate synthase (ALS), acetyl CoA carboxylase (ACCase), hydroxyphenyl pyruvate dioxygenase (HPPD), and a sulfonylurea herbicide and/or at least one transgene selected from the group of transgenes conferring insect resistance, nematode resistance, fungal resistance, an improvement in seed oil quantity, an improvement in seed oil quality, abiotic stress resistance, and intrinsic yield increases. In certain embodiments, the plant comprises at least one herbicide resistance transgene and/or at least one insect resistance conferring transgene that encodes a  Bacillus thuringiensis  toxin. In certain embodiments, the plant comprises at least one herbicide resistance transgene selected from the group consisting of a dicamba resistance conferring transgene a glyphosate resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and/or at least one transgene encoding a product that confers insect resistance selected from the group consisting of a dsRNA that inhibits a target gene of an insect pest, a patatin, a  Bacillus thuringiensis  insecticidal protein, a  Xenorhabdus  insecticidal protein, a  Photorhabdus  insecticidal protein, a  Bacillus laterosporous  insecticidal protein, a  Bacillus sphaericus  insecticidal protein, and a lignin. 
     Also provided herein are methods of identifying a transgenic soybean plant that comprises a genotype associated with stacked transgenic trait improvement, the method comprising: (a) scoring at least one transgenic plant in a population of transgenic soybean plants that had been exposed to dicamba for dicamba tolerance, the plants having a transgene that confers resistance to dicamba; and, (b) selecting a transgenic plant that exhibits dicamba tolerance, thereby identifying a transgenic soybean plant that comprises a genotype associated with stacked transgenic trait improvement. In certain embodiments, the population is segregating for to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12) that is associated with stacked transgenic trait improvement. In certain embodiments, the method further comprises genotyping the selected soybean plant with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12). In certain embodiments, the selected transgenic plant further comprises a transgene that confers resistance to glyphosate and the selected transgenic plant or progeny thereof is scored for reproductive tolerance to glyphosate following exposure to glyphosate. In certain embodiments of any of the preceding methods, the methods further comprise exposing the population of transgenic soybean plants to dicamba. In certain embodiments of any of the preceding methods, dicamba tolerance is scored by determining a reduction in malformation when compared to a dicamba sensitive transgenic plant that comprises the transgene that confers resistance to dicamba. In certain embodiments of any of the preceding methods, the stacked transgenic trait improvement is selected from the group consisting of an improvement in transgene-mediated resistance to one or more herbicide(s), an improvement in transgene-mediated resistance to one or more insect(s), an improvement in transgene-mediated resistance to one or more nematode(s), an improvement in transgene-mediated resistance to one or more fungal disease(s), an improvement in transgene-mediated resistance to one or more abiotic stress(es), in one or more improvement(s) in transgene-mediated seed oil quantity trait(s), one or more improvement(s) in seed oil quality trait(s), an improvement in transgene-mediated intrinsic yield increases, and combinations thereof. In certain embodiments of any of the preceding methods, the selected plant comprises at least one additional herbicide resistance transgene selected from the group consisting of a glyphosate resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and/or at least transgene encoding a product that confers insect resistance selected from the group consisting of a dsRNA that inhibits a target gene of an insect pest, a patatin, a  Bacillus thuringiensis  insecticidal protein, a  Xenorhabdus  insecticidal protein, a  Photorhabdus  insecticidal protein, a  Bacillus laterosporous  insecticidal protein, a  Bacillus sphaericus  insecticidal protein, and a lignin. 
     Also provided herein are methods of identifying a transgenic soybean plant that comprises a genotype associated with stacked transgenic trait improvement, comprising: (a) scoring at least one plant in a population of transgenic soybean plants that had been exposed to glyphosate for reproductive tolerance to glyphosate, wherein the plants comprise a transgene that confers resistance to glyphosate; and, (b) selecting a transgenic plant that exhibits reproductive tolerance to glyphosate, thereby identifying a transgenic soybean plant that comprises a genotype associated with stacked transgenic trait improvement. In certain embodiments, the population is segregating for to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12) that is associated with stacked transgenic trait improvement. In certain embodiments, the method further comprises genotyping the selected soybean plant with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12). In certain embodiments of any of the preceding methods, the selected transgenic plant further comprises a transgene that confers resistance to dicamba and the selected transgenic plant or progeny thereof is scored for tolerance to dicamba following exposure to dicamba. In certain embodiments of any of the preceding methods, the methods further comprise exposing the population of transgenic soybean plants to glyphosate. In certain embodiments of any of the preceding methods, glyphosate reproductive tolerance is scored by determining a reduction in sterility when compared to a transgenic plant that exhibits glyphosate reproductive sensitivity and comprises the transgene that confers resistance to glyphosate. In certain embodiments of any of the preceding methods, the stacked transgenic trait improvement is selected from the group consisting of an improvement in transgene-mediated resistance to one or more herbicide(s), an improvement in transgene-mediated resistance to one or more insect(s), an improvement in transgene-mediated resistance to one or more nematode(s), an improvement in transgene-mediated resistance to one or more fungal disease(s), an improvement in transgene-mediated resistance to one or more abiotic stress(es), in one or more improvement(s) in transgene-mediated seed oil quantity trait(s), one or more improvement(s) in seed oil quality trait(s), an improvement in transgene-mediated intrinsic yield increases, and combinations thereof. In certain embodiments of any of the preceding methods, the selected plant comprises at least one additional herbicide resistance transgene selected from the group consisting of a dicamba resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and/or at least one transgene encoding a product that confers insect resistance selected from the group consisting of a dsRNA that inhibits a target gene of an insect pest, a patatin, a  Bacillus thuringiensis  insecticidal protein, a  Xenorhabdus  insecticidal protein, a  Photorhabdus  insecticidal protein, a  Bacillus laterosporous  insecticidal protein, a  Bacillus sphaericus  insecticidal protein, and a lignin. 
     Also provided are methods of obtaining a transgenic soybean plant that comprises a genotype associated with stacked transgenic trait improvement, the methods comprising: exposing a population of transgenic soybean plants to an herbicide, wherein the plants have a transgene that confers resistance to the herbicide; observing herbicide tolerance exhibited by one or more soybean plants following exposure to the herbicide; and, (c) selecting a transgenic plant that exhibits herbicide tolerance, thereby obtaining a transgenic soybean plant that comprises a genotype associated with stacked transgenic trait improvement. In certain embodiments, the population is segregating for to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12) that is associated with stacked transgenic trait improvement. In certain embodiments, the method further comprises genotyping the selected soybean plant with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12). In certain embodiments of any of the preceding methods, the transgene that confers resistance to the herbicide is selected from the group consisting of a dicamba resistance conferring transgene, a glyphosate resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and the plants are exposed to the corresponding herbicide. In certain embodiments of any of the preceding methods, the transgene confers resistance to glyphosate and the selected transgenic plant or progeny thereof is scored for reproductive tolerance to glyphosate following exposure to glyphosate. In certain embodiments of any of the preceeding methods, the transgene confers resistance to dicamba and the selected transgenic plant or progeny thereof are scored for dicamba tolerance. 
     Also provided herein are methods of identifying a transgenic soybean plant that comprises a genotype associated with reproductive tolerance to glyphosate, the method comprising: (a) scoring at least one transgenic plant in a population of transgenic soybean plants that had been exposed to dicamba for dicamba tolerance, the plants having a transgene that confers resistance to dicamba; and, (b) selecting a transgenic plant that exhibits dicamba tolerance, thereby identifying a transgenic soybean plant that comprises a genotype associated with reproductive tolerance to glyphosate. In certain embodiments of the methods, the population is segregating for to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12) that is associated with dicamba tolerance. In certain embodiments of the methods, the methods further comprise genotyping the selected soybean plant with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12). In certain embodiments of any of the aforementioned methods, the selected transgenic plant further comprises a transgene that confers resistance to glyphosate and wherein the selected transgenic plant or progeny thereof is scored for reproductive tolerance to glyphosate following exposure to glyphosate. In certain embodiments of any of the aforementioned methods, the methods further comprise exposing the population of transgenic soybean plants to dicamba. In certain embodiments of any of the aforementioned methods, the dicamba tolerance is scored by determining a reduction in malformation when compared to a dicamba sensitive transgenic plant that comprises the transgene that confers resistance to dicamba. 
     Also provided herein are methods of identifying a transgenic soybean plant that comprises a genotype associated with tolerance to dicamba, comprising: (a) scoring at least one plant in a population of transgenic soybean plants that had been exposed to glyphosate for reproductive tolerance to glyphosate, wherein the plants comprise a transgene that confers resistance to glyphosate; and, (b) selecting a transgenic plant that exhibits reproductive tolerance to glyphosate, thereby identifying a transgenic soybean plant that comprises a genotype associated with dicamba tolerance. In certain embodiments of the methods, the population is segregating for to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12) that is associated with dicamba tolerance. In certain embodiments of the methods, the method further comprises genotyping the selected soybean plant with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12). In certain embodiments of any of the aforementioned methods, the selected transgenic plant further comprises a transgene that confers resistance to dicamba and wherein the selected transgenic plant or progeny thereof is scored for tolerance to dicamba following exposure to dicamba. In certain embodiments of any of the aforementioned methods, the methods further comprise exposing the population of transgenic soybean plants to glyphosate. In certain embodiments of any of the aforementioned methods, the glyphosate reproductive tolerance is scored by determining a reduction in sterility when compared to a transgenic plant that exhibits glyphosate reproductive sensitivity and comprises the transgene that confers resistance to glyphosate. 
     Also provided herein are methods of obtaining a transgenic soybean plant that comprises a genotype associated with reproductive tolerance to glyphosate, the methods comprising: (a) exposing a population of transgenic soybean plants to dicamba, wherein the plants have a transgene that confers resistance to dicamba; (b) observing dicamba tolerance exhibited by one or more soybean plants following exposure to dicamba; and, (c) selecting a transgenic plant that exhibits dicamba tolerance, thereby obtaining a transgenic soybean plant that comprises a genotype associated with reproductive tolerance to glyphosate. In certain embodiments of the methods, the population is segregating for to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12) that is associated with dicamba tolerance. In certain embodiments of the methods, the methods further comprise genotyping the selected soybean plant with respect to at least one genetic locus in a linkage group L genomic region flanked by loci M0205928 (SEQ ID NO: 4) and BU765955 (SEQ ID NO: 12). In certain embodiments of any of the aforementioned methods, the selected transgenic plant further comprises a transgene that confers resistance to glyphosate and the selected transgenic plant or progeny thereof is scored for reproductive tolerance to glyphosate following exposure to glyphosate. In certain embodiments of any of the aforementioned methods, the dicamba tolerance is scored by determining a reduction in malformation when compared to a dicamba sensitive transgenic plant that comprises the transgene that confers resistance to dicamba. Further areas of applicability will become apparent from the description provided herein. It should be understood that the description and specific examples are intended for purposes of illustration only and are not intended to limit the scope of the present disclosure. 
    
    
     
       BRIEF DESCRIPTION OF THE DRAWINGS 
         FIG.  1    shows a bar graph of the percent injury at 7 days after treatment with Dicamba (y-axis) for various favorable and unfavorable soybean plant haplotypes containing a dicamba resistance conferring transgene (x-axis). The favorable haplotypes are haplotypes that are not associated with the dicamba intolerance trait and the unfavorable haplotypes are associated with the dicamba intolerance trait. In the graph, “Fav Hap is “Favorable Haplotype” and “Unf Hap” is “Unfavorable Haplotype”. The data show that presence of the favorable haplotype is associated with improved tolerance to dicamba. 
         FIG.  2    shows a bar graph of the percent injury at 7 days after treatment with either a single treatment (V6 stage, solid bars) or two treatments (V3+V6 stages, open bars) of Dicamba (y-axis) for various favorable and unfavorable soybean plant haplotypes (x-axis) containing a dicamba resistance conferring transgene (x-axis). In the graph, “Fav Hap is “Favorable Haplotype” and “Unf Hap” is “Unfavorable Haplotype”. The data show that favorable haplotypes can be selected with either a single treatment at the V6 stage or two treatments at the V3 and V6 stages. 
     
    
    
     DETAILED DESCRIPTION 
     Definitions 
     As used herein, an “allele” refers to one of two or more alternative forms of a genomic sequence at a given locus on a chromosome. When all the alleles present at a given locus on a chromosome are the same, that plant is homozygous at that locus. If the alleles present at a given locus on a chromosome differ, that plant is heterozygous at that locus. 
     As used herein, the term “denoting” when used in reference to a plant genotype refers to any method whereby a plant is indicated to have a certain genotype. Such indications of a certain genotype include, but are not limited to, any method where a plant is physically marked or tagged. Physical markings or tags that can be used include, but not limited to, a barcode, a radio-frequency identification (RFID), a label or the like. Indications of a certain genotype also include, but are not limited to, any entry into any type of written or electronic database whereby the plant&#39;s genotype is provided. 
     A “locus” is a position on a genomic sequence that is usually found by a point of reference; e.g., a short DNA sequence that is a gene, or part of a gene or intergenic region. A locus may refer to a nucleotide position at a reference point on a chromosome, such as a position from the end of the chromosome. 
     As used herein, “linkage group L” corresponds to the soybean linkage group L described in Choi, et al., Genetics. 2007 May; 176(1): 685-696. Linkage group L, as used herein, also corresponds to soybean chromosome 19 (as described on the World Wide Web at soybase.org/LG2Xsome.php). As used herein, “polymorphism” means the presence of one or more variations of a nucleic acid sequence at one or more loci in a population of at least two members. The variation can comprise but is not limited to one or more nucleotide base substitutions, the insertion of one or more nucleotides, a nucleotide sequence inversion, and/or the deletion of one or more nucleotides. 
     As used herein, the term “single nucleotide polymorphism,” also referred to by the abbreviation “SNP,” means a polymorphism at a single site wherein the polymorphism constitutes any or all of a single base pair change, an insertion of one or more base pairs, and/or a deletion of one or more base pairs. 
     As used herein, “marker” means a detectable characteristic that can be used to discriminate between organisms. Examples of such characteristics include, but are not limited to, genetic markers, biochemical markers, fermentation yield, fermentation efficiency, energy yield, secondary compounds, metabolites, morphological characteristics, and agronomic characteristics. 
     As used herein, “marker assay” means a method for detecting a polymorphism at a particular locus using a particular method. Marker assays thus include, but are not limited to, measurement of at least one phenotype (such as seed color, flower color, or other visually detectable trait as well as any biochemical trait), restriction fragment length polymorphism (RFLP), single base extension, electrophoresis, sequence alignment, allelic specific oligonucleotide hybridization (ASO), random amplified polymorphic DNA (RAPD), microarray-based polymorphism detection technologies, and the like. 
     As used herein, “genotype” means the genetic component of the phenotype and it can be indirectly characterized using markers or directly characterized by nucleic acid sequencing. 
     As used herein, the term “introgressed”, when used in reference to a genetic locus, refers to a genetic locus that has been introduced into a new genetic background. Introgression of a genetic locus can thus be achieved through both plant breeding methods or by molecular genetic methods. Such molecular genetic methods include, but are not limited to, various plant transformation techniques and/or methods that provide for homologous recombination, non-homologous recombination, site-specific recombination, and/or genomic modifications that provide for locus substitution or locus conversion. In certain embodiments, introgression could thus be achieved by substitution of a dicamba intolerance locus with a corresponding dicamba tolerance locus or by conversion of a locus from a dicamba intolerance genotype to a dicamba tolerance genotype. 
     As used herein, “phenotype” means the detectable characteristics of a cell or organism which can be influenced by gene expression. 
     As used herein, “linkage” refers to relative frequency at which types of gametes are produced in a cross. For example, if locus A has genes “A” or “a” and locus B has genes “B” or “b” and a cross between parent I with AABB and parent B with aabb will produce four possible gametes where the genes are segregated into AB, Ab, aB and ab. The null expectation is that there will be independent equal segregation into each of the four possible genotypes, i.e. with no linkage ¼ of the gametes will of each genotype. Segregation of gametes into a genotypes differing from ¼ are attributed to linkage. 
     As used herein, the termed “linked”, when used in the context of markers and/or genomic regions, means that the markers and/or genomic regions are located on the same linkage group or chromosome. 
     As used herein, a “nucleic acid molecule,” be it a naturally occurring molecule or otherwise may be “substantially purified”, if desired, referring to a molecule separated from substantially all other molecules normally associated with it in its native state. More preferably, a substantially purified molecule is the predominant species present in a preparation. A substantially purified molecule may be at least about 60% free, preferably at least about 75% free, more preferably at least about 90% free, and most preferably at least about 95% free from the other molecules (exclusive of solvent) present in the natural mixture. The term “substantially purified” is not intended to encompass molecules present in their native state. 
     As used herein, “quantitative trait locus (QTL)” means a locus that controls to some degree numerically representable traits that are usually continuously distributed. As used herein, the term “transgene” means nucleic acid molecules in the form of DNA, such as cDNA or genomic DNA, and RNA, such as mRNA or microRNA, which may be single or double stranded. 
     As used herein, the term “event”, when used in the context of describing a transgenic plant, refers to a particular transformed plant line. In a typical transgenic breeding program, a transformation construct responsible for a trait is introduced into the genome via a transformation method. Numerous independent transformants (events) are usually generated for each construct. These events are evaluated to select those with superior performance. 
     As used herein, the term “soybean” means  Glycine max  and includes all plant varieties that can be bred with soybean, including wild soybean species. In certain embodiments, soybean plants from the species  Glycine max  and the subspecies  Glycine max  L. ssp. max or  Glycine max  ssp.  formosana  can be genotyped using the compositions and methods of the present invention. In an additional aspect, the soybean plant is from the species  Glycine soja , otherwise known as wild soybean, can be genotyped using these compositions and methods. Alternatively, soybean germplasm derived from any of  Glycine max, Glycine max  L. ssp. max,  Glycine max  ssp.  Formosana , and/or  Glycine soja  can be genotyped using compositions and methods provided herein. 
     As used herein, the term “bulk” refers to a method of managing a segregating population during inbreeding that involves growing the population in a bulk plot, harvesting the self-pollinated seed of plants in bulk, and using a sample of the bulk to plant the next generation. 
     As used herein, the phrase “transgene that confers tolerance to dicamba” refers to the ability of a transgene to provide a soybean plant capable of surviving exposure to dicamba at a rate of about 0.5 pounds of acid equivalent per acre of dicamba acid to about 1.5 pounds of acid equivalent per acre of dicamba acid applied at either pre-emergence and/or postemergence. Transgenic plants comprising a transgene that confers tolerance to dicamba can exhibit either a “dicamba tolerant” phenotype in certain soybean germplasms or a “dicamba sensitive” phenotype in other distinct soybean germplasms when exposed to dicamba. 
     As used herein, the phrase “dicamba intolerant” refers to undesirable phenotypic traits observed in certain soybean germplasms that comprise a transgene that confers resistance to dicamba after exposure to dicamba at a rate of about 0.5 pounds of acid equivalent per acre of dicamba acid to about 1.5 pounds of acid equivalent per acre of dicamba acid. Such undesirable phenotypic traits include, but are not limited to, pronounced bending/twisting of the main stem and petioles, necrosis of the upper nodes and petioles, and/or limitation of new growth. 
     As used herein, the phrase “dicamba tolerant” refers to either the absence or reduction of undesirable phenotypic traits observed after exposure to dicamba in “dicamba intolerant” soybean germplasms that comprise a transgene that confers resistance to dicamba. 
     As used herein, the term “comprising” means “including but not limited to”. 
     As used herein, the terms “scoring” or “score”, refer to any qualitive, semi-quantitive, or quantitive method for determining the presence, absence, and/or the partial presence or absence, of a phenotypic trait. 
     As used herein, the phrase “susceptible variety”, when used in reference to herbicide tolerance in a soybean plant comprising a transgene that confers resistance to that herbicide, refers to a soybean variety that allele(s) of the stacked transgenic trait improvement locus that do not confer such stacked transgenic trait improvements. “Susceptible varieties’ are also referred to herein as “sensitive varieties” in the context of herbicide tolerance in a soybean plant comprising a transgene that confers resistance to that herbicide. 
     As used herein, the phrase “corresponding herbicide”, when used in reference to a transgene that confers herbicide resistance, refers to the herbicide that the transgene confers resistance to. Thus, a corresponding herbicide for a transgene that confers resistance to glyphosate, dicamba, 2,4-D, or glufosinate is respectively glyphosate, dicamba, 2,4-D, or glufosinate. 
     Description 
     In accordance with the present invention, Applicants have discovered genomic regions, associated markers, and associated methods for identifying and associating genotypes that effect the levels of dicamba tolerance observed in soybean plants comprising a transgene that confers resistance to dicamba. Dicamba (3, 6-dichloro-o-anisic acid) is a useful broad spectrum herbicide for controlling weeds. For example, in one embodiment, a method of the invention comprises screening a plurality of transgenic germplasm entries displaying a heritable variation for at least one transgene mediated dicamba resistance trait wherein the heritable variation is linked to at least one genotype; and associating at least one genotype from the transgenic germplasm entries to at least one dicamba tolerance trait. In another embodiment, a method of the invention comprises crossing at least two germplasm entries with a test germplasm entry for the evaluation of performance of at least one dicamba tolerance trait in order to determine preferred crossing schemes. The methods of the present invention can be used with traditional breeding techniques as described below to more efficiently screen and identify genotypes affecting a dicamba tolerance trait. 
     The use of markers to infer a phenotype of interest results in the economization of a breeding program by substituting costly, time-intensive phenotyping assays with genotyping assays. Further, breeding programs can be designed to explicitly drive the frequency of specific, favorable phenotypes by targeting particular genotypes (U.S. Pat. No. 6,399,855). Fidelity of these associations may be monitored continuously to ensure maintained predictive ability and, thus, informed breeding decisions (US Patent Application 2005/0015827). In this case, costly, time-intensive phenotyping assays required for determining if a plant or plants contains a genomic region associated with a “dicamba tolerance” or “Dicamba intolerance” phenotype can be supplanted by genotypic assays that provide for identification of a plant or plants that contain the desired genomic region that confers dicamba tolerance. 
     A Genomic Region Associated with a Dicamba Tolerance Phenotype 
     Provided herewith is a soybean genomic region that is shown herein to be associated with a desirable dicamba tolerance phenotype when present in certain allelic forms and when combined with certain transgenic loci that confer dicamba tolerance. 
     A soybean genomic region provided that can be associated with a desirable dicamba tolerance phenotype when present in certain allelic forms is located on the telomere proximal end of the short arm of soybean linkage group L (chromosome 19). A series of markers useful in practicing the methods of this invention are provided herewith in Table 1. Additional markers useful in the practice of the invention are provided herewith in Table 2 of the Specification, which is incorporated herewith by reference in its entirety. Table 2 provides the Table 1 markers, additional nucleic acid markers or loci that have been disclosed in various databases, the relative positions of the markers on a physical map of linkage group L (soybean chromosome 19), and sources for the markers. 
     
       
         
           
               
             
               
                 TABLE 1 
               
             
            
               
                   
               
               
                 Markers spanning a genomic region associated 
               
               
                 with a desirable dicamba tolerance phenotype 
               
            
           
           
               
               
               
               
            
               
                   
                   
                   
                 Allelic form(s) 
               
               
                 Marker or 
                 SEQ ID 
                 Map 
                 Associated with 
               
               
                 Locus Name 
                 NO: 
                 Position  1   
                 Dicamba Tolerance  2   
               
               
                   
               
            
           
           
               
               
               
               
            
               
                 asmbl_11856 
                 1 
                 16506 
                   
               
               
                 TC122822 
                 2 
                 32108 
               
               
                 BI967232 
                 3 
                 66686 
               
               
                 M0205928 
                 4 
                 92526 
               
               
                 M0101742 3   
                 5 
                 112836 
                 TT 6   
               
               
                 M0129138 
                 6 
                 114013 
               
               
                 BU551345 
                 7 
                 116147 
               
               
                 M0114388 
                 8 
                 380897 
               
               
                 BU551363 
                 9 
                 422447 
               
               
                 M0205350 4   
                 10 
                 423935 
                 TT 7   
               
               
                 M0102027 5   
                 11 
                 466558 
                 CC 8   
               
               
                 BU765955 
                 12 
                 474316 
               
               
                 M0093116 
                 13 
                 805580 
               
               
                 M0129925 
                 14 
                 831128 
               
               
                 M0205537 
                 15 
                 890254 
               
               
                 M0202715 
                 16 
                 921431 
               
               
                 M0206286 
                 17 
                 1209977 
               
               
                 M0206054 
                 18 
                 1465354 
               
               
                 M0205375 
                 19 
                 2009800 
               
               
                 NGMAX008197032 9   
                 52 
                 314997 
                 AA 10   
               
               
                   
               
               
                   1  The relative positions of the approximate middle position of the listed markers or loci based on nucleotide positions on a physical map of soybean linkage group L (chromosome 19) of Table 2 are provided where nucleotide position 0 (zero) is telomere proximal and nucleotide position 2009800 is centromere proximal. Polymorphic nucleotide bases are designated in the sequence listing provided herewith according to the WIPO Standard ST.25 (1998), Table 1, as follows: r = g or a (purine); y = t/u or c (pyrimidine); m = a or c; (amino); k = g or t/u (keto); s = g or c (strong interactions 3 H-bonds); w = a or t/u (weak interactions 2H-bonds); b = g or c or t/u (not a); d = a or g or t/u (not c); h = a or c or t/u (not g); v = a or g or c (not t, not u); and n = a or g or c or t/u (unknown, or other; any.) 
               
               
                   2  Both the maternal and paternal alleles of the single nucleotide polymorphisms that can be associated with a dicamba tolerance phenotype are shown. 
               
               
                   3 The identified polymorphic allele of marker M0101742 is located at nucleotide 1206 of SEQ ID NO: 5. 
               
               
                   4 The identified polymorphic allele of marker M0205350 is located at nucleotide 148 of SEQ ID NO: 10. 
               
               
                   5 The identified polymorphic allele of marker M0102027is located at nucleotide 349 of SEQ ID NO: 11. 
               
               
                   6 The identified polymorphic allele of marker M0101742 “TT” can be associated with a dicamba tolerance phenotype when the identified polymorphic alleles of the other markers are: “TT” for M0205350 and, in certain embodiments, “CC” for M0102027. 
               
               
                   7 The identified polymorphic allele of marker M020350 “TT” can be associated with a dicamba tolerance phenotype when the identified polymorphic alleles of the other markers are: “TT” for M0101742 and, in certain embodiments, “CC” for M0102027. 
               
               
                   8 In certain embodiments, the identified polymorphic allele “CC” for marker M0102027 can be associated with a dicamba tolerance phenotype when the identified polymorphic alleles of the other markers are: “TT” for M0101742 and “TT” for M020350. 
               
               
                   9 The identified polymorphic allele of marker NGMAX008197032 is located at nucleotide 201 of SEQ ID NO: 52. 
               
               
                   10 In certain embodiments, the identified polymorphic allele of marker NGMAX008197032 “AA” can be associated with a dicamba tolerance phenotype when the identified polymorphic alleles of the other markers are: “TT” for M0205350 and, in certain embodiments, “CC” for M0102027, and “TT” for M0101742. 
               
            
           
         
       
     
     Also provided herein are sub-regions of the linkage group L region that is flanked by loci M0205928 (SEQ ID NO: 4) and BU765995 (SEQ ID NO: 12) that are associated with a dicamba tolerance phenotype. A first sub-region of the linkage group L region associated with a dicamba tolerance phenotype is flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6). These loci flank a first sub-region that spans telomere proximal nucleotide 92334 to centromere proximal nucleotide 113494 in the physical map of linkage group L provided in Table 2 of the specification. Polymorphisms located in this first sub-region that are associated with a dicamba tolerance phenotype can be detected with markers that include, but are not limited to, M0101742 (SEQ ID NO: 5). A second sub-region of the linkage group L region associated with a dicamba tolerance phenotype is flanked by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12). These loci flank the second sub-region that spans telomere proximal nucleotide 422447 to centromere proximal nucleotide 474316 in the physical map of linkage group L provided in Table 2 of the specification. Polymorphisms located in this second sub-region that are associated with a dicamba tolerance phenotype can be detected with markers that include, but are not limited to, M0205350 (SEQ ID NO: 10) or M0102027 (SEQ ID NO: 11). A third sub-region of the linkage group L region associated with a dicamba tolerance phenotype is flanked by loci BU55345 (SEQ ID NO:7) and M0114388 (SEQ ID NO:8). These loci flank the second sub-region that spans telomere proximal nucleotide 115,956 to centromere proximal nucleotide 380,486 in the physical map of linkage group L provided in Table 2 of the specification. Polymorphisms located in this third sub-region that are associated with a dicamba tolerance phenotype can be detected with markers that include, but are not limited to, NGMAX008197032 (SEQ ID NO:52). In certain embodiments of invention, a polymorphism associated with a dicamba tolerant phenotype is detected in only one of these sub-regions. In other embodiments of the invention, at least one polymorphism associated with a dicamba tolerant phenotype is detected in any two of these sub-regions. Thus, a marker including, but not limited to, M0101742 (SEQ ID NO: 5) can be used either independently of, or in combination with, one or more markers selected from the group consisting of M0205350 (SEQ ID NO: 10) and/or M0102027 (SEQ ID NO: 11) to detect polymorphisms associated with a dicamba tolerance phenotype. In certain embodiments, a marker including, but not limited to, M0101742 (SEQ ID NO: 5) can be used either independently of, or in combination with, marker NGMAX008197032 (SEQ ID NO:52) to detect polymorphisms associated with a dicamba tolerance phenotype. In certain embodiments, a marker including, but not limited to, marker NGMAX008197032 (SEQ ID NO:52) can be used either independently of, or in combination with, one or more markers selected from the group consisting of M0205350 (SEQ ID NO: 10) and/or M0102027 (SEQ ID NO: 11) to detect polymorphisms associated with a dicamba tolerance phenotype. In certain embodiments, a polymorphism in the first sub-region is detected with marker M0101742 (SEQ ID NO: 5) and a polymorphism in the second sub-region is detected with markers M0205350 (SEQ ID NO: 10) and/or M0102027 (SEQ ID NO: 11). In certain embodiments, a polymorphism in the first sub-region is detected with marker M0101742 (SEQ ID NO: 5) and a polymorphism in the third sub-region is detected with marker NGMAX008197032 (SEQ ID NO: 52). In certain embodiments, the alleles of these markers associated with dicamba tolerance are a TT allele M0101742 (SEQ ID NO: 5), a TT allele of M0205350 (SEQ ID NO: 10), and, in certain embodiments, a CC allele of M0102027 (SEQ ID NO: 11), and an AA allele of NGMAX008197032 (SEQ ID NO:52). 
     Additional genetic markers can be used either in conjunction with the markers provided in Table 1 and/or Table 2 or independently of the markers provided in Table 1 and/or Table 2 to practice the methods of the instant invention. Publicly available marker databases from which useful markers can be obtained include, but are not limited to, the soybase.org website on the internet (World Wide Web) that is administered by the United States Agricultural Research Service, the United States Department of Agriculture, and Iowa State University. Additional soybean markers that can be used and that have been described in the literature include, but are not limited to, Hyten et al., BMC Genomics. 11:38, 2010; Choi et al., Genetics. 176(1):685-96, 2007; Yoon et al., Theor Appl Genet. 2007 March; 114(5):885-99; and Hyten et al. Crop Sci. 2010 50: 960-968. Given the provision herein of a genomic region on linkage group L (chromosome 19) delimited or flanked by the telomere proximal locus M0205928 (SEQ ID NO: 4) of Table 2 and the centromere proximal locus BU765955 (SEQ ID NO: 12) of Table 2 as well as an assortment of soybean germplasms exhibiting either a “dicamba intolerant” or “dicamba tolerant” phenotype, additional markers located either within or near this genomic region that are associated with these phenotypes can be obtained by merely typing the new markers in the various germplasms provided herewith. The genomic region on linkage group L (chromosome 19) delimited or flanked by the telomere proximal locus M0205928 (SEQ ID NO: 5) of Table 2 and the centromere proximal locus BU765955 (SEQ ID NO: 12) of Table 2 can also be mapped relative to markers provided in any publicly available or other soybean physical or genetic map to place this genetic locus on that map. 
     Identification of Plants Exhibiting the “Dicamba Intolerance” or “Dicamba Tolerance” Phenotype 
     To observe the presence or absence of the “dicamba intolerance” or dicamba tolerance phenotypes, transgenic soybean plants comprising a transgene that confers resistance to dicamba are typically exposed in early to mid-vegetative growth stages to one or more high doses of dicamba. Typical doses of dicamba that can elicit a dicamba intolerance phenotype can range from about a 2-fold label application rate of a commercially available dicamba formulation to about a 3-fold label application rate of a commercially available dicamba formulation. In terms of acid equivalents of dicamba acid applied, typical doses of dicamba that can elicit a dicamba intolerance phenotype can range from an application rate of about 1.0 pounds of acid equivalent per acre of dicamba acid to about 1.5 pounds of acid equivalent per acre of dicamba acid when the indicated amounts of dicamba acid are provided in either a commercially available dicamba formulation or when the indicated amounts of dicamba acid is provided in a similar formulation suitable for application to dicamba-tolerant crops. Commercially available dicamba formulations that can be used include, but are not limited to, Clarity® (BASF, N.C., USA); Banvel®, Banvel M®, Banvel Banvel SGF®, or Vanquish® (Syngenta, Wilmington, Del., USA); or Rifle® (Loveland Products, Inc., Loveland, Colo., USA). In certain embodiments, the commercially available dicamba formulation used is Clarity®. In certain embodiments, doses of dicamba that can elicit a dicamba intolerance phenotype can range from about a 2 fold application rate of about 0.25 gallons per acre Clarity® to about a three fold application rate of about 0.375 gallons per acre per acre Clarity®. 
     The dicamba intolerance phenotype can be observed approximately a week after herbicide application in certain soybean varieties comprising the transgene that confers resistance to dicamba. Dicamba is typically applied during pre and post-emergent vegetative growth stages. In certain embodiments of these methods, dicamba can be applied in weekly intervals (i.e. once a week) for any of 2, 3, 4 or more successive weeks to score for the presence of the dicamba intolerance phenotype. In certain embodiments, soybean plants at about the V3 vegetative development stage are exposed to an initial dicamba spray followed by a subsequent spray at V6/R1. Genotypes provided herein are especially useful for providing dicamba tolerance to plants sprayed at the V6 stage. As discussed herein, the vegetative stages of soybean are as follows: VE (emergence), VC (cotyledon stage), V1 (first trifoliate leaf), V2 (second trifoliate leaf), V3 (third trifoliate leaf), V(n) (nth trifoliate leaf), and V6 (flowering will soon start). As discussed herein, the reproductive stages of soybean are as follows: R1 (beginning bloom), R2 (full bloom), R3 (beginning pod), R4 (full pod), R5 (beginning seed), R6 (full seed), R7 (beginning maturity) and R8 (full maturity). A description of the soybean vegetative and reproductive stages can be found on the world wide web (internet) at ag.ndsu.edu/pubs/plantsci/rowcrops/a1174/a1174 w.htm (North Dakota State University publication A-1174, June 1999, Reviewed and Reprinted August 2004). 
     A rating scale that evaluates the degree of dicamba intolerance can also be employed to identify “dicamba intolerant” and “dicamba tolerant” plants. An exemplary and non-limiting scale for evaluating the Dicamba intolerance phenotype is as follows, where a low number corresponds to a “dicamba tolerance” phenotype and the a high number correlates to a “dicamba intolerance” phenotype: 
     A rating of 1: Less than 10% of plants show malformation 
     A rating of 2: 10-50% of plants show malformation 
     A rating of 3: Greater than 50% of plants show malformation 
     Identification of Plants Exhibiting Reproductive Tolerance to Glyphosate Phenotype 
     To observe the presence or absence of reproductive tolerance to glyphosate phenotypes, transgenic soybean plants comprising a transgene that confers glyphosate resistance are typically exposed in mid- to late-vegetative growth stages to one or more high doses of glyphosate. Doses of glyphosate that can elicit a reproductive sensitivity phenotype are usually at least about twice the typical application rates of commercial glyphosate formulations that are used to provide weed control in transgenic, glyphosate resistant soybean plants. In terms of acid equivalents of glyphosate acid applied, typical doses of glyphosate that can elicit a reproductive sensitivity phenotype can range from an application rate of about 1.0 pounds of acid equivalent per acre (about 1.12 kilograms per hectare) of glyphosate acid to about 2.25 pounds of acid equivalent per acre (i.e. about 2.52 kilograms per hectare) of glyphosate acid when the indicated amounts of glyphosate acid are provided in either a commercially available glyphosate formulation or when the indicated amounts of glyphosate acid is provided in a similar formulation suitable for application to glyphosate-tolerant crops. Commercially available glyphosate formulations that can be used include, but are not limited to, Roundup Original MAX®, Roundup PowerMAX®, Roundup UltraMax®, or RoundUp WeatherMAX® (Monsanto Co., St. Louis, Mo., USA); Touchdown IQ® or Touchdown Total® (Syngenta, Wilmington, Del., USA); Glyphomax®, Glyphomax Plus®, or Glyphomax XRT® (Dow Agrosciences LLC, Indianapolis, Ind., USA). In certain embodiments, the commercially available glyphosate formulation used is RoundUp WeatherMAX®. In certain embodiments, doses of glyphosate that can elicit a reproductive sensitivity phenotype can range from about a 2 fold application rate of about 42.6 ounces per acre RoundUp WeatherMax® (1.68 kilograms per hectare) to about a three fold application rate of about 63.9 ounces per acre RoundUp WeatherMax® (i.e. about 2.52 kilograms per hectare). 
     The reproductive sensitivity phenotype can be observed at an appropriate stage of reproductive development after herbicide application in certain soybean varieties comprising the transgene that confers glyphosate resistance. Glyphosate is typically applied during vegetative growth stages, where applications in later vegetative growth stages can typically elicit reproductive sensitivity at lower application rates. In certain embodiments of these methods, glyphosate can be applied in weekly intervals (i.e. once a week) for any of 2, 3, 4 or more successive weeks to score for the presence of the reproductive sensitivity phenotype. In certain embodiments, soybean plants at about the V3 vegetative development stage are exposed to an initial glyphosate spray followed by a subsequent spray at the V6 vegetative stage. In certain embodiments, soybean plants at about the V6 vegetative development stage are exposed to a glyphosate spray. As discussed herein, the vegetative stages of soybean are as follows: VE (emergence), VC (cotyledon stage), V1 (first trifoliolate leaf), V2 (second trifoliolate leaf), V3 (third trifoliolate leaf), V(n) (nth trifoliolate leaf), and V6 (flowering will soon start). As discussed herein, the reproductive stages of soybean are as follows R1 (beginning bloom, first flower); R2 (full bloom, flower in top 2 nodes); R3 (beginning pod, 3/16″ pod in top 4 nodes); R4 (full pod, ¾″ pod in top 4 nodes); R5 (⅛″ seed in top 4 nodes); R6 (full size seed in top 4 nodes); R7 (beginning maturity, one mature pod); and, R8 (full maturity, 95% of pods on the plant are mature). A description of the soybean vegetative and reproductive stages can be found on the world wide web (internet) at ag.ndsu.edu/pubs/plantsci/rowcrops/a1174/a1174w.htm (North Dakota State University publication A-1174, June 1999, Reviewed and Reprinted August 2004). Expression of the reproductive sensitivity trait can also be influenced by temperature, where the trait in varieties that display the reproductive sensitivity phenotype is more pronounced following treatment at temperatures of about 32 degrees Celsius or more. 
     A rating scale that evaluates the degree of reproductive sensitivity can also be employed to identify “tolerant” and “sensitive” plants. An exemplary and non limiting scale for evaluating the reproductive sensitivity phenotype is as follows, where the low numbers correspond to a “glyphosate reproductive tolerance” phenotype and the high numbers correlate to a “glyphosate reproductive sensitivity” phenotype where sterility is monitored as follows:
         A rating scale of 1: Less than 10% of plants show sterility (glyphosate reproductive tolerance)   A rating scale of 2: Less than 10-50% of plants show sterility   A rating scale 3: Greater than 50% of plants show sterility (glyphosate reproductive sensitivity)
 
Soybean plant sterility can be measured by a variety of methods that include, but are not limited to, determining pollen counts, seed yield per plant, seed yield per pod, and the like. Controls used to determine glyphosate reproductive sensitivity or tolerance of a given transgenic soybean test plant comprising a transgenic insertion event that confers glyphosate resistance in a certain genetic background (i.e. genotype) in comparison tests include, but are not limited to, (a) co-cultivated soybean plants comprising the same transgenic insertion event in a genetic background that provides for glyphosate reproductive sensitivity; and/or (b) co-cultivated soybean plants comprising the same transgenic insertion event in a genetic background that provides for glyphosate reproductive tolerance, where the test and control plants are sprayed with glyphosate. Additional controls used to determine glyphosate reproductive sensitivity or tolerance can also include, but are not limited to, co-cultivated soybean plants of the same genotypes (i.e. soybean plants that are isogenic with respect to both the transgenic insertion event and genetic background as either the test or control soybean lines) that are not sprayed with glyphosate.
 
Introgression of a Genomic Region Associated with a Dicamba Tolerance Phenotype
       

     Also provided herewith is unique soybean germplasm comprising an introgressed genomic region that is associated with a dicamba tolerance phenotype and methods of obtaining the same. Marker-assisted introgression involves the transfer of a chromosomal region, defined by one or more markers, from one germplasm to a second germplasm. Offspring of a cross that contain the introgressed genomic region can be identified by the combination of markers characteristic of the desired introgressed genomic region from a first germplasm (i.e. such as a dicamba tolerance germplasm) and both linked and unlinked markers characteristic of the desired genetic background of a second germplasm (i.e. a dicamba intolerance germplasm). In addition to the markers provided herewith that identify alleles of genomic region that is associated with a dicamba tolerance phenotype, flanking markers that fall on both the telomere proximal end of the genomic region on linkage group L (chromosome 19) and the centromere proximal end of the linkage group L (chromosome 19) genomic region are also provided in Tables 1 and 2. Table 2 is provided at the end of the specification immediately before the claims. Such flanking markers are useful in a variety of breeding efforts that include, but are not limited to, introgression of the genomic region associated with a dicamba tolerance phenotype into a genetic background comprising markers associated with germplasm that ordinarily contains the allelic forms of the genomic region that is associated with a “Dicamba intolerance” phenotype. Telomere proximal flanking markers that can be used in these methods include, but are not limited to, asmbl_11856 (SEQ ID NO: 1), TC122822 (SEQ ID NO: 2), BI967232 (SEQ ID NO: 3), and/or polymorphisms in any of the loci listed in Table 2 of the Specification located between starting base 16426 (the telomere proximal base) of locus asmbl_11856 and starting base 92334 of locus M0205928 (SEQ ID NO: 4). Centromere proximal flanking markers that can be used in these methods include, but are not limited to, M0205537 (SEQ ID NO: 15), M0202715 (SEQ ID NO: 16), M0206286 (SEQ ID NO: 17), M0206054 (SEQ ID NO: 18) and M0205375 (SEQ ID NO: 19) and/or polymorphisms in any of the other loci listed in Table 2 that are centromere proximal to BU765955 (SEQ ID NO: 12). Soybean plants wherein the two subregions that are respectively flanked by loci M0205928 (SEQ ID NO: 4) and M0129138 (SEQ ID NO: 6 and by loci BU551363 (SEQ ID NO: 9) and BU765955 (SEQ ID NO: 12) are selectively introgressed can be obtained by using the BU551345 (SEQ ID NO: 7), SATT723, and/or M0114388 (SEQ ID NO: 8) markers, or by using any of the markers located between these two subregions that are provided in Table 2. Any of the aforementioned polymorphisms can be identified by sequencing loci from dicamba intolerant and dicamba tolerance germplasms. Additional markers located on linkage group L (chromosome 19) and other chromosomes are disclosed in US Patent Application Publication 20090208964. Publicly available marker databases from which additional useful markers located on linkage group L (chromosome 19) and other chromosomes can be obtained include, but are not limited to, the soybase.org website on the internet that is administered by the United States Agricultural Research Service, the United States Department of Agriculture, and Iowa State University. Soybean plants or germplasm comprising an introgressed genomic region that is associated with a dicamba tolerance phenotype wherein at least 10%, 25%, 50%, 75%, 90%, or 99% of the remain genomic sequences carry markers characteristic of soybean plants or germplasm that are otherwise or ordinarily comprise a genomic region associated with the Dicamba intolerance phenotype are thus provided. 
     Soybean Plants Comprising Genomic Region Associated with the Dicamba Intolerance and Dicamba Tolerance Phenotypes and Transgenes that Confer Resistance to Dicamba 
     A non-limiting and exemplary list of soybean plants that comprise genomic regions associated with either a dicamba-intolerance or a dicamba tolerance phenotype are provided herewith in Table 3. 
     
       
         
           
               
             
               
                 TABLE 3 
               
             
            
               
                   
               
               
                 Soybean varieties comprising a genomic region associated 
               
               
                 with a dicamba tolerance or dicamba intolerant phenotype. 
               
            
           
           
               
               
               
               
               
               
            
               
                   
                   
                   
                   
                 ATCC 
                   
               
               
                   
                   
                   
                 Variety 
                 Depository 
                 Date of 
               
               
                 Branded 
                 Dicamba 
                 U.S. Pat. 
                 Name in 
                 Accession 
                 Patent 
               
               
                 Name  1   
                 Phenotype 
                 No. 
                 Patent 
                 Number  2   
                 Issue 
               
               
                   
               
            
           
           
               
               
               
               
               
               
            
               
                 AG3102 
                 Intolerant 
                 7,964,777 
                 7629164 
                 PTA-10825 
                 Jun. 21, 2011 
               
               
                 AG3603 
                 Intolerant 
                 7,592,516 
                 D4328762 
                 PTA-9797 
                 Sep. 22, 2009 
               
               
                 AG4903 
               
               
                 AG4907 
                 Intolerant 
                 7,687,685 
                 D5703684 
                 PTA-10153 
                 Mar. 30, 2010 
               
               
                 AG0803 
                 Tolerant 
                 7,498,489 
                 4498438 
                 PTA-9064 
               
               
                 AG3102 
                 Tolerant 
                 7,964,777 
                 7629164 
                 PTA-10825 
                 Jun. 21, 2011 
               
               
                 AG3603 
                 Tolerant 
                 7,592,516 
                 D4328762 
                 PTA-9797 
                 Sep. 22, 2009 
               
               
                 BBL3606N0R 
               
               
                 BL3307M2-D0RL 
               
               
                 AG4903 
               
               
                 AG4907 
                 Tolerant 
                 7,687,685 
                 D5703684 
                 PTA-10153 
                 Mar. 30, 2010 
               
               
                 260744-14 
               
               
                 AFL0506C0R 
                 Tolerant 
                 7,723,583 
                 D5864369 
                 PTA-10719 
                 May 25, 2010 
               
               
                 AG0808 
                 Tolerant 
                 7,732,672 
                 D5142326 
                 PTA-10168 
                 Jun. 8, 2010 
               
               
                 263619-24 
               
               
                 4065735-51 
               
               
                 5463213-25 
               
               
                 AG1002 
                 Tolerant 
                 7,294,770 
                 5826175 
                 PTA-8148 
                 Nov. 13, 2007 
               
               
                 AG1403 
                 Tolerant 
                 7,557,273 
                 6943322 
                 PTA-9554 
                 Jul. 7, 2009 
               
               
                 AG1406 
                 Tolerant 
                 7,732,673 
                 D5232589 
                 PTA-10268 
                 Jun. 8, 2010 
               
               
                 CSR1920 
                 Tolerant 
                 7,728,199 
                 7821295 
                 PTA-10519 
                 Jun. 1, 2010 
               
               
                 15733-79-59 
               
               
                 5081541-27 
               
               
                 5464705-06 
               
               
                 AG2110 
                 Tolerant 
                 7,678,965 
                 D5624834 
                 PTA-10134 
                 Mar. 16, 2010 
               
               
                 AG2606 
                 Tolerant 
                 7,622,644 
                 D4201139 
                 PTA-9749 
                 Nov. 24, 2009 
               
               
                 AG2909 
                 Tolerant 
                 7,999,153 
                 D5502014 
                 PTA-11081 
                 Aug. 16, 2011 
               
               
                 AG2921V 
                 Tolerant 
                 7,390,940 
                 4858197 
                 PTA-9072 
                 Jun. 24, 2008 
               
               
                 AG3021V 
                 Tolerant 
                 7,572,958 
                 D4361423 
                 PTA-9801 
                 Aug. 11, 2009 
               
               
                 BOX2906H0R 
               
               
                 DFN3306B0R 
                 Tolerant 
                 7,626,089 
                 D4311702 
                 PTA-9781 
                 Dec. 1, 2009 
               
               
                 CSRS4782N 
                 Tolerant 
                 7,700,847 
                 D5898941 
                 PTA-10598 
                 Apr. 20, 2010 
               
               
                 GL4807A2-D0RN 
                 Tolerant 
                 7,868,230 
                 D5523145 
                 PTA-11362 
                 Jan. 11, 2011 
               
               
                   
               
               
                   1  Branded names of Asgrow ® (designated “AG”) and DEKALB ® soybean varieties from Monsanto Co. 800 N. Lindbergh Blvd., St. Louis, MO, USA. 
               
               
                   2  Deposit numbers of seed available through the American Type Culture Collection (ATCC), 10801 University Blvd., Manassas, Va., USA, 20110-2209. 
               
               
                   3  Dicamba phenotype is the phenotype observed in the indicated germplasm containing a transgene that confers resistance to dicamba when exposed to dicamba. 
               
            
           
         
       
     
     Also provided herewith are additional soybean plants that comprising a genomic region associated with a dicamba intolerant or dicamba tolerance phenotype that are identified by use of the markers provided in Table 1 and/or Table 2 and/or methods provided herein. Any of the soybean plants identified in Table 3 or other soybean plants that are otherwise identified using the markers or methods provided herein can be used in methods that include, but are not limited to, methods of obtaining soybean plants with an introgressed dicamba tolerance locus, obtaining a soybean plant that exhibits a dicamba tolerance phenotype, or obtaining a soybean plant comprising in its genome a genetic region associated with a dicamba tolerance phenotype. 
     In certain embodiments, the soybean plants provided herein or used in the methods provided herein can comprise a transgene that confers resistance to dicamba. In certain embodiments, the dicamba tolerant soybean plants can comprise a transgene encoding a dicamba-degrading dicamba monoxygenase (DMO) enzyme that catalyzes the conversion of herbicidal dicamba (3, 6-dichloro-o-anisic acid) to a non-toxic 3, 6-dichlorosalicylic acid. In certain embodiments, the dicamba-degrading dicamba monoxygenase (DMOw) comprise a DMO enzyme disclosed in U.S. Pat. Nos. 7,022,896, 7,105,724, and 7,812,224, each incorporated herein by reference in their entireties. Exemplary and non-limiting DMOw dicamba monooxygenase encoding nucleic acid and protein sequences are provided herewith as SEQ ID NO: 20 and SEQ ID NO: 21. In certain embodiments, the dicamba tolerant soybean plants can comprise a dicamba monoxygenase variant which exhibits improved catalytic parameters such as increased turnover number and/or a lower km for the substrate, improved catalysis at lower pH values, and/or improved catalysis at higher temperatures relative to an unaltered dicamba monooxygenase. In certain embodiments, the dicamba monoxygenase variant comprises a DMOc variant enzyme disclosed in U.S. Pat. No. 7,884,262, incorporated herein by reference in its entirety. Exemplary and non-limiting DMOc dicamba monooxygenase variant encoding nucleic acid and protein sequences are provided herewith as SEQ ID NO: 22 and SEQ ID NO: 23. In certain embodiments, a dicamba monooxygenase is operably linked to a chloroplast transit peptide (CTP). Operable linkage of certain CTPs to DMO is disclosed in U.S. Pat. No. 8,084,666, which is incorporated herein by reference in its entirety. In certain embodiments, it is contemplated that the soybean plants used herein can comprise one or more specific genomic insertion(s) of a dicamba tolerant transgene including, but not limited to, as those found in MON87708 soybean (deposited under ATCC accession number PTA-9670 and described in US Patent Application Publication Number 20110067134). 
     In certain embodiments, the soybean plants provided herein or used in the methods provided herein can comprise a transgene that confers tolerance to glyphosate. Transgenes that can confer tolerance to glyphosate include, but are not limited to, transgenes that encode glyphosate tolerant Class I EPSPS (5-enolpyruvylshikimate-3-phosphate synthases) enzymes or glyphosate tolerant Class II EPSPS (5-enolpyruvylshikimate-3-phosphate synthases) enzymes. Useful glyphosate tolerant EPSPS enzymes provided herein are disclosed in U.S. Pat. Nos. 6,803,501, RE39,247, 6,225,114, 5,188,642, and 4,971,908. In certain embodiments, the glyphosate tolerant soybean plants can comprise a transgene encoding a glyphosate oxidoreductase or other enzyme which degrades glyphosate. Glyphosate oxidoreductase enzymes had been described in U.S. Pat. No. 5,776,760 and US Reissue patent RE38,825. In certain embodiments the soybean plant can comprise a transgene encoding a glyphosate N-acetyltransferase gene that confers tolerance to glyphosate. In certain embodiments, the soybean plant can comprise a glyphosate n-acetyltransferase encoding transgene such as those described in U.S. Pat. No. 7,666,644. In still other embodiments, soybean plants comprising combinations of transgenes that confer glyphosate tolerance are provided. Soybean plants comprising both a glyphosate resistant EPSPS and a glyphosate N-acetyltransferase are also provided herewith. In certain embodiments, it is contemplated that the soybean plants used herein can comprise one or more specific genomic insertion(s) of a glyphosate tolerant transgene including, but not limited to, as those found in: i) MON89788 soybean (deposited under ATCC accession number PTA-6708 and described in US Patent Application Publication Number 20100099859), ii) GTS 40-3-2 soybean (Padgette et al., Crop Sci. 35: 1451-1461, 1995), iii) event 3560.4.3.5 soybean (seed deposited under ATCC accession number PTA-8287 and described in US Patent Publication 20090036308), or any combination of i (MON89788 soybean), ii (GTS 40-3-2 soybean), and iii (event 3560.4.3.5 soybean). 
     In certain embodiments, the gene that confers resistance to dicamba is a gene encoding a Dicamba monooxygenase (DMO). The DMO gene is a microbial gene that has been transformed into soybean and cotton to confer tolerance to the dicamba herbicide. The DMO protein expressed in the plants transformed with the DMO gene actively metabolizes dicamba to 3,6-dichloro salicylic acid (DCSA), which lacks herbicidal activity. In certain embodiments, Dicamba resistant (DR) soybeans can be crossed with “RoundUp Ready 2 Yield™” (RR2Y) soybeans to generate a stack (RR2Y×DR) which can confer resistance to both dicamba and glyphosate. It has been observed in certain germplasms that a herbicide traits (i.e. transgene conferred glyphosate and dicamba resistance)×germplasm interaction can result in increased sensitivity to dicamba (i.e. “dicamba intolerance”) that may be commercially undesirable. In certain embodiments, favorable haplotypes are provided herein which are associated with robust tolerance to dicamba and glyphosate, and which are useful for selection of RR2Y×DR soybeans that do not exhibit dicamba intolerance. 
     In certain embodiments, it is contemplated that genotypic assays that provide for non-destructive identification of the plant or plants can be performed either in seed, the emergence stage, the “VC” stage (i.e. cotyledons unfolded), the V1 stage (appearance of first node and unifoliate leaves), the V2 stage (appearance of the first trifoliate leaf), and thereafter. In certain embodiments, non-destructive genotypic assays are performed in seed using apparati and associated methods as described in U.S. Pat. Nos. 6,959,617; 7,134,351; 7,454,989; 7,502,113; 7,591,101; 7,611,842; and 7,685,768, which are incorporated herein by reference in their entireties. In certain embodiments, non-destructive genotypic assays are performed in seed using apparati and associated methods as described in US Patent Application Publications 20100086963, 20090215060, and 20090025288, which are incorporated herein by reference in their entireties. Published U.S. Patent Applications US 2006/0042527, US 2006/0046244, US 2006/0046264, US 2006/0048247, US 2006/0048248, US 2007/0204366, and US 2007/0207485, which are incorporated herein by reference in their entirety, also disclose apparatus and systems for the automated sampling of seeds as well as methods of sampling, testing and bulking seeds. Thus, in a certain embodiments, any of the methods provided herein can comprise screening for markers in individual seeds of a population wherein only seed with at least one genotype of interest is advanced. 
     Soybean Plants Comprising a Genomic Region Associated with Stacked Transgenic Trait Improvement and Transgenes that Confer Resistance to Other Herbicides and/or Insects 
     In certain embodiments, soybean plants comprising a genomic region associated with stacked transgenic trait improvement (or the dicamba tolerance phenotype) and at least one additional herbicide resistance transgene selected from the group consisting of a dicamba resistance conferring transgene, a 2,4-D resistance conferring transgene, and a glufosinate resistance conferring transgene and/or at least one transgene encoding a product that confers insect resistance selected from the group consisting of a dsRNA that inhibits a target gene of an insect pest, a patatin, a  Bacillus thuringiensis  insecticidal protein, a  Xenorhabdus  insecticidal protein, a  Photorhabdus  insecticidal protein, a  Bacillus laterosporous  insecticidal protein, a  Bacillus sphaericus  insecticidal protein, and a lignin are provided herein. Such transgenic trait improvements that can occur in plants comprising the genomic regions provided herein can be ascertained by comparing transgenic trait performance in varieties containing the genomic regions to the transgenic trait performance in other varieties lacking the genomic region. Such transgenic herbicide resistance trait improvements that can occur in plants comprising the genomic regions provided herein can include, but are not limited to, decreased phytotoxicity upon herbicide exposure in varieties containing the genomic regions conferring the improved transgenic trait performance and the corresponding herbicide resistance conferring transgene in comparison to other varieties lacking the genomic region and the corresponding herbicide resistance conferring transgene upon herbicide exposure. Various dsRNAs that inhibit a target gene of an insect pest are described in US Patent Application Publication Number 20120137387, which is specifically incorporated herein by reference in its entirety. A  Bacillus thuringiensis  insecticidal protein can be any of a number of insecticidal proteins including but not limited to a Cry1, a Cry3, a TIC851, a CryET70, a Cry22, a TIC901, a TIC1201, a TIC407, a TIC417, a binary insecticidal protein CryET33 and CryET34, a binary insecticidal protein CryET80 and CryET76, a binary insecticidal protein TIC100 and TIC101, a binary insecticidal protein PS149B1, a VIP insecticidal protein, a TIC900 or related protein, or combinations of the insecticidal proteins ET29 or ET37 with insecticidal proteins TIC810 or TIC812, and insecticidal chimeras of any of the preceding insecticidal proteins. A  Bacillus thuringiensis  insecticidal protein can be any of a number of insecticidal proteins including but not limited to a Cry1Aa, Cry1Ab, Cry1Ac, Cry1Ad, Cry1Ae, Cry1Ba, Cry1Bb, Cry1Ca, Cry1Cb, Cry1Da, Cry1db, Cry1Ea, Cry1Eb, Cry1Fa, Cry1Fb, Cry1Ga, Cry1Ha, Cry2Aa, Cry2Ab, Cry1Ja, Cry1Ka, Cry11Aa, Cry11Ab, Cry12Aa, Cry3Ba, Cry3Bb, Cry3C, Cry4a, Cry4Ba, Cry5a, Cry5Ab, Cry6Aa, Cry6Ba, Cry7Aa, Cry7Ab, Cry8Aa, Cry8Ba, Cry8Ca, Cry9Aa, Cry9Ba, Cry9Ca, Cry10Aa, Cry11Aa, Cry12Aa, Cry13Aa, Cry14Aa, Cry15Aa, Cyt1Aa, and Cyt2Aa protein or an insecticidal chimeras thereof. Insecticidal chimeras of certain  Bacillus thuringiensis  insecticidal proteins include, but are not limited to, Cry1A/F and other chimeras disclosed in US Patent Application Publication No. 20090143298. Such transgenic insect resistance trait improvements that can occur in plants comprising the genomic regions provided herein can include, but are not limited to, decreased insect-mediated plant damage, or increased insect death, inhibition, stunting, or cessation of insect feeding in varieties containing the genomic regions that confer the transgenic trait performance in comparison to other varieties lacking the genomic region. 
     Molecular Assisted Breeding Techniques 
     Genetic markers that can be used in the practice of the instant invention include, but are not limited to, are Restriction Fragment Length Polymorphisms (RFLP), Amplified Fragment Length Polymorphisms (AFLP), Simple Sequence Repeats (SSR), Single Nucleotide Polymorphisms (SNP), Insertion or Deletion Polymorphisms (Indels), Variable Number Tandem Repeats (VNTR), and Random Amplified Polymorphic DNA (RAPD), and others known to those skilled in the art. Marker discovery and development in crops provides the initial framework for applications to marker-assisted breeding activities (US Patent Applications 2005/0204780, 2005/0216545, 2005/0218305, and 2006/00504538). The resulting “genetic map” is the representation of the relative position of characterized loci (DNA markers or any other locus for which alleles can be identified) along the chromosomes. The measure of distance on this map is relative to the frequency of crossover events between sister chromatids at meiosis. 
     As a set, polymorphic markers serve as a useful tool for fingerprinting plants to inform the degree of identity of lines or varieties (U.S. Pat. No. 6,207,367). These markers form the basis for determining associations with phenotype and can be used to drive genetic gain. The implementation of marker-assisted selection is dependent on the ability to detect underlying genetic differences between individuals. 
     Certain genetic markers for use in the present invention include “dominant” or “codominant” markers. “Codominant markers” reveal the presence of two or more alleles (two per diploid individual). “Dominant markers” reveal the presence of only a single allele. The presence of the dominant marker phenotype (e.g., a band of DNA) is an indication that one allele is present in either the homozygous or heterozygous condition. The absence of the dominant marker phenotype (e.g., absence of a DNA band) is merely evidence that “some other” undefined allele is present. In the case of populations where individuals are predominantly homozygous and loci are predominantly dimorphic, dominant and codominant markers can be equally valuable. As populations become more heterozygous and multiallelic, codominant markers often become more informative of the genotype than dominant markers. 
     In another embodiment, markers that include, but are not limited to, single sequence repeat markers (SSR), AFLP markers, RFLP markers, RAPD markers, phenotypic markers, isozyme markers, single nucleotide polymorphisms (SNPs), insertions or deletions (Indels), single feature polymorphisms (SFPs, for example, as described in Borevitz et al. 2003 Gen. Res. 13:513-523), microarray transcription profiles, DNA-derived sequences, and RNA-derived sequences that are genetically linked to or correlated with dicamba tolerance loci, regions flanking dicamba tolerance loci, regions linked to dicamba tolerance loci, and/or regions that are unlinked to dicamba tolerance loci can be used in certain embodiments of the instant invention. 
     In one embodiment, nucleic acid-based analyses for determining the presence or absence of the genetic polymorphism (i.e. for genotyping) can be used for the selection of seeds in a breeding population. A wide variety of genetic markers for the analysis of genetic polymorphisms are available and known to those of skill in the art. The analysis may be used to select for genes, portions of genes, QTL, alleles, or genomic regions (Genotypes) that comprise or are linked to a genetic marker that is linked to or correlated with dicamba tolerance loci, regions flanking dicamba tolerance loci, regions linked to dicamba tolerance loci, and/or regions that are unlinked to dicamba tolerance loci can be used in certain embodiments of the instant invention. 
     Nucleic acid analysis methods provided herein include, but are not limited to, PCR-based detection methods (for example, TaqMan™ assays), microarray methods, mass spectrometry-based methods and/or nucleic acid sequencing methods. In one embodiment, the detection of polymorphic sites in a sample of DNA, RNA, or cDNA may be facilitated through the use of nucleic acid amplification methods. Such methods specifically increase the concentration of polynucleotides that span the polymorphic site, or include that site and sequences located either distal or proximal to it. Such amplified molecules can be readily detected by gel electrophoresis, fluorescence detection methods, or other means. 
     A method of achieving such amplification employs the polymerase chain reaction (PCR) (Mullis et al. 1986 Cold Spring Harbor Symp. Quant. Biol. 51:263-273; European Patent 50,424; European Patent 84,796; European Patent 258,017; European Patent 237,362; European Patent 201,184; U.S. Pat. Nos. 4,683,202; 4,582,788; and 4,683,194), using primer pairs that are capable of hybridizing to the proximal sequences that define a polymorphism in its double-stranded form. 
     Methods for typing DNA based on mass spectrometry can also be used. Such methods are disclosed in U.S. Pat. Nos. 6,613,509 and 6,503,710, and references found therein. Polymorphisms in DNA sequences can be detected or typed by a variety of effective methods well known in the art including, but not limited to, those disclosed in U.S. Pat. Nos. 5,468,613, 5,217,863; 5,210,015; 5,876,930; 6,030,787; 6,004,744; 6,013,431; 5,595,890; 5,762,876; 5,945,283; 5,468,613; 6,090,558; 5,800,944; 5,616,464; 7,312,039; 7,238,476; 7,297,485; 7,282,355; 7,270,981 and 7,250,252 all of which are incorporated herein by reference in their entireties. However, the compositions and methods of the present invention can be used in conjunction with any polymorphism typing method to type polymorphisms in genomic DNA samples. These genomic DNA samples used include but are not limited to genomic DNA isolated directly from a plant, cloned genomic DNA, or amplified genomic DNA. 
     For instance, polymorphisms in DNA sequences can be detected by hybridization to allele-specific oligonucleotide (ASO) probes as disclosed in U.S. Pat. Nos. 5,468,613 and 5,217,863. U.S. Pat. No. 5,468,613 discloses allele specific oligonucleotide hybridizations where single or multiple nucleotide variations in nucleic acid sequence can be detected in nucleic acids by a process in which the sequence containing the nucleotide variation is amplified, spotted on a membrane and treated with a labeled sequence-specific oligonucleotide probe. 
     Target nucleic acid sequence can also be detected by probe ligation methods as disclosed in U.S. Pat. No. 5,800,944 where sequence of interest is amplified and hybridized to probes followed by ligation to detect a labeled part of the probe. 
     Microarrays can also be used for polymorphism detection, wherein oligonucleotide probe sets are assembled in an overlapping fashion to represent a single sequence such that a difference in the target sequence at one point would result in partial probe hybridization (Borevitz et al., Genome Res. 13:513-523 (2003); Cui et al., Bioinformatics 21:3852-3858 (2005). On any one microarray, it is expected there will be a plurality of target sequences, which may represent genes and/or noncoding regions wherein each target sequence is represented by a series of overlapping oligonucleotides, rather than by a single probe. This platform provides for high throughput screening a plurality of polymorphisms. A single-feature polymorphism (SFP) is a polymorphism detected by a single probe in an oligonucleotide array, wherein a feature is a probe in the array. Typing of target sequences by microarray-based methods is disclosed in U.S. Pat. Nos. 6,799,122; 6,913,879; and 6,996,476. 
     Target nucleic acid sequence can also be detected by probe linking methods as disclosed in U.S. Pat. No. 5,616,464, employing at least one pair of probes having sequences homologous to adjacent portions of the target nucleic acid sequence and having side chains which non-covalently bind to form a stem upon base pairing of the probes to the target nucleic acid sequence. At least one of the side chains has a photoactivatable group which can form a covalent cross-link with the other side chain member of the stem. 
     Other methods for detecting SNPs and Indels include single base extension (SBE) methods. Examples of SBE methods include, but are not limited, to those disclosed in U.S. Pat. Nos. 6,004,744; 6,013,431; 5,595,890; 5,762,876; and 5,945,283. SBE methods are based on extension of a nucleotide primer that is adjacent to a polymorphism to incorporate a detectable nucleotide residue upon extension of the primer. In certain embodiments, the SBE method uses three synthetic oligonucleotides. Two of the oligonucleotides serve as PCR primers and are complementary to sequence of the locus of genomic DNA which flanks a region containing the polymorphism to be assayed. Following amplification of the region of the genome containing the polymorphism, the PCR product is mixed with the third oligonucleotide (called an extension primer) which is designed to hybridize to the amplified DNA adjacent to the polymorphism in the presence of DNA polymerase and two differentially labeled dideoxynucleosidetriphosphates. If the polymorphism is present on the template, one of the labeled dideoxynucleosidetriphosphates can be added to the primer in a single base chain extension. The allele present is then inferred by determining which of the two differential labels was added to the extension primer. Homozygous samples will result in only one of the two labeled bases being incorporated and thus only one of the two labels will be detected. Heterozygous samples have both alleles present, and will thus direct incorporation of both labels (into different molecules of the extension primer) and thus both labels will be detected. 
     In another method for detecting polymorphisms, SNPs and Indels can be detected by methods disclosed in U.S. Pat. Nos. 5,210,015; 5,876,930; and 6,030,787 in which an oligonucleotide probe having a 5′ fluorescent reporter dye and a 3′ quencher dye covalently linked to the 5′ and 3′ ends of the probe. When the probe is intact, the proximity of the reporter dye to the quencher dye results in the suppression of the reporter dye fluorescence, e.g. by Forster-type energy transfer. During PCR forward and reverse primers hybridize to a specific sequence of the target DNA flanking a polymorphism while the hybridization probe hybridizes to polymorphism-containing sequence within the amplified PCR product. In the subsequent PCR cycle DNA polymerase with 5′→3′ exonuclease activity cleaves the probe and separates the reporter dye from the quencher dye resulting in increased fluorescence of the reporter. 
     In another embodiment, the locus or loci of interest can be directly sequenced using nucleic acid sequencing technologies. Methods for nucleic acid sequencing are known in the art and include technologies provided by 454 Life Sciences (Branford, Conn.), Agencourt Bioscience (Beverly, Mass.), Applied Biosystems (Foster City, Calif.), LI-COR Biosciences (Lincoln, Nebr.), NimbleGen Systems (Madison, Wis.), Illumina (San Diego, Calif.), and VisiGen Biotechnologies (Houston, Tex.). Such nucleic acid sequencing technologies comprise formats such as parallel bead arrays, sequencing by ligation, capillary electrophoresis, electronic microchips, “biochips,” microarrays, parallel microchips, and single-molecule arrays, as reviewed by R. F. Service Science 2006 311:1544-1546. 
     The markers to be used in the methods of the present invention should preferably be diagnostic of origin in order for inferences to be made about subsequent populations. Experience to date suggests that SNP markers may be ideal for mapping because the likelihood that a particular SNP allele is derived from independent origins in the extant populations of a particular species is very low. As such, SNP markers appear to be useful for tracking and assisting introgression of QTLs, particularly in the case of Genotypes. 
     EXAMPLES 
     The following examples are included to demonstrate preferred embodiments of the invention. It should be appreciated by those of skill in the art that the techniques disclosed in the examples which follow represent techniques discovered by the inventor to function well in the practice of the invention, and thus can be considered to constitute preferred modes for its practice. However, those of skill in the art should, in light of the present disclosure, appreciate that many changes can be made in the specific embodiments which are disclosed and still obtain a like or similar result without departing from the spirit and scope of the invention. 
     Example 1 
     Marker-assisted backcrossing (MABC) is a common breeding methodology to transfer a gene of interest into a desired recurrent parent. MABC was used to transfer both the dicamba resistance (DMO) transgene (U.S. Patent Appl. US20110067134) and the glyphosate resistant RoundUp Ready 2 Yield™ (RR2Y) CP4 genes (U.S. Pat. No. 7,632,985) into several recurrent parents. The process involved making three backcrosses to the recurrent parent and using genome wide markers to target the recovery of 95% or greater of the recurrent parent genome. In this process, markers were used to confirm the presence of the DMO and RR2Y CP4 genes and the absence of the RR1 CP4 gene. The haplotype at the dicamba tolerance locus for each recurrent parent was known. 
     Observations on MABC lines whose recurrent parents contained different haplotypes were made. For each MABC, there were several variants, with each variant tracing to a unique BC3F1 plant. The MABC lines were grown in spray trials at two locations throughout the United States with two replications at each location. Each line was planted in a paired, twelve foot plot. Each plot was sprayed at V3 with 0.75 lb a.e./acre of glyphosate and 1.0 lb a.e./acre dicamba followed by the same treatment at V6. Malformation was measured as the percentage of plants within a plot that were malformed. For each MABC, the data were averaged across variants, replications, and locations to place into one the following categories: 
     1. No malformation: No severe malformation detected 
     2. Malformation: &gt;20% severe malformation 
     The data are presented in Table 4. The 6 MABC lines with a CCAATT or TTAATT haplotype all showed malformation whereas the 25 lines with the TTTTCC haplotype showed no malformation. These observations indicated that the presence of certain haplotypes at the dicamba tolerance locus in lines containing the DMO and RR2Y CP4 transgenes leads to malformation following dicamba treatment. 
     
       
         
           
               
             
               
                 TABLE 4 
               
             
            
               
                   
               
               
                 Recurrent Parent Haplotypes and Malformation Phenotypes 
               
               
                 in Response to Dicamba Application. 
               
            
           
           
               
               
               
               
               
               
               
            
               
                 Recurrent 
                 Number of 
                   
                   
                   
                   
                 Response 
               
               
                 Parent 
                 Observations 
                 MG 
                 M0101742 
                 M0205350 
                 M0102027 
                 to Dicamba 
               
               
                   
               
            
           
           
               
               
               
               
               
               
               
            
               
                 AG3102 
                 24 
                 3 
                 CC 
                 AA 
                 TT 
                 Malformation 
               
               
                 AG3603 
                 30 
                 3 
                 CC 
                 AA 
                 TT 
                 Malformation 
               
               
                 BBL3606N0R 
                 30 
                 3 
                 CC 
                 AA 
                 TT 
                 Malformation 
               
               
                 BL3307M2-D0RL 
                 30 
                 3 
                 CC 
                 AA 
                 TT 
                 Malformation 
               
               
                 AG4903 
                 36 
                 4 
                 TT 
                 AA 
                 TT 
                 Malformation 
               
               
                 AG4907 
                 36 
                 4 
                 CC 
                 AA 
                 TT 
                 Malformation 
               
               
                 260744-14 
                 24 
                 0 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AFL0506C0R 
                 24 
                 0 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG0803 
                 24 
                 0 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG0808 
                 24 
                 0 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 263619-24 
                 24 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 4065735-51 
                 24 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 5463213-25 
                 36 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG1002 
                 24 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG1403 
                 24 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG1406 
                 24 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 CSR1920 
                 36 
                 1 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 15733-79-59 
                 30 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 5081541-27 
                 12 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 5464705-06 
                 30 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG2110 
                 36 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG2606 
                 29 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG2909 
                 30 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG2921V 
                 30 
                 2 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG3021V 
                 30 
                 3 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG3803 
                 30 
                 3 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 BOX2906H0R 
                 30 
                 3 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 AG3803 
                 30 
                 3 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 DFN3306B0R 
                 24 
                 3 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 CSRS4782N 
                 36 
                 4 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                 GL4807A2-D0RN 
                 36 
                 4 
                 TT 
                 TT 
                 CC 
                 No Malformation 
               
               
                   
               
            
           
         
       
     
     Example 2: Haplotypes Associated with a Malformation and Sterility Phenotypes for MG 6 and 7 BC2F3:4 Populations Upon Herbicide Application 
     The effect of different haplotypes on response to dicamba and glyphosate were evaluated by comparing MG6-7 BC2F3:4 lines that contained a CP4 transgene that confers tolerance to glyphosate and a DMO transgene that confers tolerance to dicamba. The recurrent parent of the population was RP1 that had the CCAACC haplotype for markers NS0101742, NS0205350, and NS0102027 markers, respectively. The donor parent of the population was DP1 that had a TTTTCC haplotype. During the breeding process, the haplotype for each line at the dicamba tolerance locus was not known. Markers were used to select for the absence of the RR1 CP4 gene, and for the presence of the RR2Y CP4 gene and the Dicamba resistance DMO gene. Table 5 describes the breeding history for this material. 
     
       
         
           
               
             
               
                 TABLE 5 
               
             
            
               
                   
               
               
                 Breeding History for Plant Material in Example 2. 
               
            
           
           
               
               
               
               
               
            
               
                 Gen. 
                 Season 
                 Year 
                 Location 
                 Breeding Activity 
               
               
                   
               
               
                 Cross 
                 Winter 
                 2007 
                 Isabella, Puerto Rico 
                 Cross 
               
               
                 F1 
                 Summer 
                 2008 
                 Isabella, Puerto Rico 
                 Backcross 
               
               
                 BC1F1 
                 Winter 
                 2008 
                 Isabella, Puerto Rico 
                 Backcross 
               
               
                 BC2F1 
                 Summer 
                 2009 
                 Isabella, Puerto Rico 
                 Bulk 
               
               
                 BC2F2 
                 Winter 
                 2009 
                 Isabella, Puerto Rico 
                 Bulk 
               
               
                 BC2F3 
                 Summer 
                 2010 
                 Mount Olive, NC 
                 Single plant selection 
               
               
                 BC2F4 
                 Summer 
                 2011 
                 Mount Olive, NC 
                 Progeny row 
               
               
                   
               
            
           
         
       
     
     A total of 360 BC2F3:4 lines were grown in Mount Olive, N.C. in 2011. The lines were grown in a single four foot rows with one replication. The lines were sprayed with 0.75 lb a.e./acre of glyphosate at V3 plant stage followed by the same rate of glyphosate at V6 plant stage plus 0.5 lb a.e./acre of dicamba. 
     Rating Scales: 
     Malformation: 
     A rating of 1: Less than 10% of plants show malformation 
     A rating of 2: 10-50% of plants show malformation 
     A rating of 3: Greater than 50% of plants show malformation 
     Sterility: 
     A rating of 1: Less than 10% of plants show sterility 
     A rating of 2: 10-50% of plants show sterility 
     A rating of 3: Greater than 50% of plants show sterility 
     Table 6 shows the distribution of lines across the different rating classes. 
     
       
         
           
               
             
               
                 TABLE 6 
               
             
            
               
                   
               
               
                 Malformation and Sterility Ratings for Soybean Populations. 
               
            
           
           
               
               
            
               
                   
                 Malformation Rating 
               
            
           
           
               
               
               
               
               
            
               
                   
                   
                 1 
                   
                   
               
               
                   
                 Sterility Rating 
                 Number of lines per rating class 
                 2 
                 3 
               
               
                   
                   
               
            
           
           
               
               
               
               
               
            
               
                   
                 1 
                 154 
                 18 
                 3 
               
               
                   
                 2 
                 58 
                 61 
                 52 
               
               
                   
                 3 
                 2 
                 2 
                 10 
               
               
                   
                   
               
            
           
         
       
     
     The 51 lines that were rated “1” for malformation and “1” for sterility and the 62 lines that were rated “3” for malformation and “2” or “3” for sterility were genotyped for the three dicamba tolerance markers as shown in Table 7. 
     
       
         
           
               
             
               
                 TABLE 7 
               
             
            
               
                   
               
               
                 Haplotypes Associated with a Malformation 
               
               
                 and Sterility Ratings for 51 Soybean Lines. 
               
            
           
           
               
               
               
            
               
                 Line 
                 Marker Haplotype 
                 Rating 
               
            
           
           
               
               
               
               
               
               
            
               
                 Number 
                 M0101742 
                 M0205350 
                 M0102027 
                 Malformation 
                 Sterility 
               
               
                   
               
            
           
           
               
               
               
               
               
               
            
               
                 123 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 124 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 126 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 128 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 135 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 136 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 140 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 141 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 143 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 144 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 145 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 149 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 151 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 154 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 156 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 157 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 159 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 160 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 164 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 171 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 173 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 184 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 189 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 193 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 200 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 201 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 203 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 204 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 212 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 213 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 214 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 216 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 217 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 218 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 222 
                 CT 
                 AT 
                 CC 
                 3 
                 2 
               
               
                 223 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 225 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 228 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 230 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 234 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 235 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 243 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 246 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                 251 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 260 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 261 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 262 
                 CT 
                 AT 
                 CC 
                 3 
                 3 
               
               
                 264 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 268 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 274 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 277 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 280 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 281 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 290 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 309 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                 314 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 316 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 317 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 318 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 319 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 324 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 329 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 330 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                 331 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                 333 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 334 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                 336 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 337 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                 338 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 340 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 347 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 348 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 350 
                 CT 
                 AT 
                 CC 
                 3 
                 2 
               
               
                 352 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 353 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 362 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 379 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 380 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 381 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 382 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 384 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 385 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 393 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 396 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 398 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 399 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 400 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 408 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 409 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 411 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 412 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 417 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 421 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 433 
                 CT 
                 AT 
                 CC 
                 1 
                 1 
               
               
                 434 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 435 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 440 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 446 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 449 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 452 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 457 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 460 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 467 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 468 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 470 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 488 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 490 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 494 
                 CC 
                 AA 
                 CC 
                 3 
                 3 
               
               
                 495 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 500 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 505 
                 CC 
                 AA 
                 CC 
                 3 
                 2 
               
               
                 510 
                 TT 
                 TT 
                 CC 
                 1 
                 1 
               
               
                 512 
                 CC 
                 AA 
                 CC 
                 1 
                 1 
               
               
                   
               
            
           
         
       
     
     The 34 lines with the TTTTCC haplotype had a rating of “1” for malformation and “1” for sterility as summarized in Table 8. 
     
       
         
           
               
             
               
                 TABLE 8 
               
             
            
               
                   
               
               
                 Summary of Table 7. 
               
            
           
           
               
               
               
            
               
                 No. of 
                 Rating 
                 Marker Haplotype 
               
            
           
           
               
               
               
               
               
               
            
               
                 lines 
                 Malformation 
                 Sterility 
                 M0101742 
                 M0205350 
                 M0102027 
               
               
                   
               
            
           
           
               
               
               
               
               
               
            
               
                 34 
                 1 
                 1 
                 TT 
                 TT 
                 CC 
               
               
                 59 
                 3 
                 2 or 3 
                 CC 
                 AA 
                 CC 
               
               
                 7 
                 1 
                 1 
               
               
                 10 
                 1 
                 1 
                 CT 
                 AT 
                 CC 
               
               
                 3 
                 3 
                 2 or 3 
               
               
                   
               
            
           
         
       
     
     Out of the 66 lines with the CCAACC haplotype, 59 had a rating of “3” for malformation and a rating of “2” or “3” for sterility. The 13 lines heterozygous for the markers had a range of ratings for malformation and sterility. 
     These results support the observations that certain haplotypes at the dicamba tolerance locus in lines containing the RR2Y CP4 and DMO transgenes causes sterility from glyphosate and malformation from dicamba applications made at the V6 plant stage 
     Example 3: Haplotypes Associated with a Malformation and Sterility Phenotypes for MG 3 and 4 Populations Upon Herbicide Application in Fontezuela, Argentina 
     The effect of different haplotypes on response to glyphosate were evaluated by measuring observing sterility in MG3 to MG4 lines in glyphosate spray trials in Fontezuela, Argentina in 2012. The lines were from populations known to segregate for markers at the dicamba tolerance locus based on parental haplotypes. During the breeding process, the haplotype for each line at the dicamba tolerance locus was not known. Table 9 describes the breeding history for this material. 
     
       
         
           
               
             
               
                 TABLE 9 
               
             
            
               
                   
               
               
                 Breeding History for Plant Material in Example 3. 
               
            
           
           
               
               
               
               
               
            
               
                 Gen. 
                 Season 
                 Year 
                 Location 
                 Breeding Activity 
               
               
                   
               
               
                 Cross 
                 Winter or 
                 2010 
                 Isabella, Puerto Rico, 
                 Cross 
               
               
                   
                 Summer 
                   
                 or Galena, MD 
               
               
                 F1 
                 Summer or 
                 2010 
                 Isabella, Puerto Rico 
                 Bulk 
               
               
                   
                 Winter 
               
               
                 F2 
                 Winter 
                 2011 
                 Kunia, HI 
                 Bulk 
               
               
                 F3 
                 Summer 
                 2011 
                 Stonington, IL 
                 Single plant 
               
               
                   
                   
                   
                   
                 selection 
               
               
                 F4 
                 Summer 
                 2012 
                 Fontezuela, Argentina 
                 Progeny row 
               
               
                   
               
            
           
         
       
     
     Markers were used to select for the absence of the RR1 CP4 gene, and for the presence of the RR2Y CP4 gene and the Dicamba resistance (DMO) gene. A total of 1,083 F3:4 lines across six populations were planted in 4 foot single row plots. Remnant seed from each line was used for genotyping the lines across two markers at the dicamba tolerance locus. The lines were sprayed with 1.125 lb a.e./acre of glyphosate at V3 plant stage followed by the same rate applied at V6. Sterility ratings were taken at maturity. 
     A rating of 1: Less than 10% of plants show sterility 
     A rating of 2: 10-50% of plants show sterility 
     A rating of 3: Greater than 50% of plants show sterility 
     The sterility ratings by haplotype class are shown in Table 10. 
     
       
         
           
               
             
               
                 TABLE 10 
               
             
            
               
                   
               
               
                 Haplotypes Associated with sterility ratings 
               
               
                 for Selected Soybean Populations. 
               
            
           
           
               
               
               
            
               
                   
                 Total 
                 No. lines per 
               
            
           
           
               
               
               
               
            
               
                   
                 Marker Haplotype 
                 No. of 
                 rating class 
               
            
           
           
               
               
               
               
               
               
               
            
               
                 Population 
                 M0101742 
                 M0205350 
                 Lines 
                 1 
                 2 
                 3 
               
               
                   
               
            
           
           
               
               
               
               
               
               
               
            
               
                 POP1 
                 TT 
                 TT 
                 42 
                 42 
                   
                   
               
               
                   
                 CC 
                 AA 
                 27 
                   
                 10 
                 17 
               
               
                   
                 CT 
                 AT 
                 25 
                 1 
                 23 
                 1 
               
               
                 POP2 
                 TT 
                 TT 
                 83 
                 83 
               
               
                   
                 TT 
                 AA 
                 23 
                   
                 8 
                 15 
               
               
                   
                 TT 
                 AT 
                 36 
                   
                 11 
                 25 
               
               
                 POP3 
                 TT 
                 TT 
                 81 
                 81 
               
               
                   
                 CC 
                 AA 
                 89 
                   
                 24 
                 65 
               
               
                   
                 CT 
                 AT 
                 40 
                 4 
                 27 
                 9 
               
               
                 POP4 
                 TT 
                 TT 
                 69 
                 69 
               
               
                   
                 CC 
                 AA 
                 43 
                 1 
                 2 
                 40 
               
               
                   
                 CT 
                 AT 
                 39 
                 1 
                 27 
                 11 
               
               
                   
                 TT 
                 TT 
                 75 
                 75 
               
               
                   
                 TT 
                 AA 
                 62 
                   
                 3 
                 59 
               
               
                   
                 TT 
                 AT 
                 44 
                   
                 44 
               
               
                 POP5 
                 TT 
                 TT 
                 185 
                 185 
               
               
                   
                 CC 
                 AA 
                 66 
                   
                 2 
                 64 
               
               
                   
                 CT 
                 AT 
                 54 
                 4 
                 47 
                 3 
               
               
                 Across 
                 TT 
                 TT 
                 535 
                 535 
                 0 
                 0 
               
               
                 populations 
                 CC 
                 AA 
                 225 
                 1 
                 38 
                 186 
               
               
                 (POP1-5) 
                 TT 
                 AA 
                 85 
                 0 
                 11 
                 74 
               
               
                   
                 CT 
                 AT 
                 158 
                 10 
                 124 
                 24 
               
               
                   
                 TT 
                 AT 
                 80 
                 0 
                 55 
                 25 
               
               
                   
               
            
           
         
       
     
     Lines with the TTTT haplotype for markers M0101742 and M0205350 did not show sterility across all populations. Nearly all lines with a CCAA or TTAA haplotype had at least 10% of plants that showed sterility. It is not unexpected that some plants in these lines did no show sterility as some variation in the spray application or other environmental variations can influence the expression of sterility. Lines genotyped as CTAT or TTAT were segregating at the dicamba tolerance locus and progeny from these lines showed a range of response for sterility. 
     These results support the observations that certain haplotypes at the dicamba tolerance locus in lines containing the RR2Y CP4 and DMO transgenes causes sterility from glyphosate applications made at the V6 plant stage. 
     Example 4: Exemplary Marker Assays for Detecting Polymorphisms 
     In one embodiment, the detection of polymorphic sites in a sample of DNA, RNA, or cDNA may be facilitated through the use of nucleic acid amplification methods. Such methods specifically increase the concentration of polynucleotides that span the polymorphic site, or include that site and sequences located either distal or proximal to it. Such amplified molecules can be readily detected by gel electrophoresis, fluorescence detection methods, or other means. Exemplary primers and probes for amplifying and detecting genomic regions associated with a dicamba tolerance phenotype are given in Table 11. 
     
       
         
           
               
             
               
                 TABLE 11 
               
             
            
               
                   
               
               
                 Exemplary Assays for Detecting Polymorphisms 
               
            
           
           
               
               
               
               
               
               
               
            
               
                   
                   
                   
                 SEQ ID NO 
                 SEQ ID NO 
                   
                   
               
               
                 Marker or 
                 Marker 
                 SNP 
                 Forward 
                 Reverse 
                 SEQ ID NO 
                 SEQ ID NO 
               
               
                 Locus Name 
                 SEQ NO ID: 
                 Position 
                 Primer 
                 Primer 
                 Probe 1 
                 Probe 2 
               
               
                   
               
            
           
           
               
               
               
               
               
               
               
            
               
                 asmbl_11856 
                 1 
                   
                   
                   
                   
                   
               
               
                 TC122822 
                 2 
               
               
                 BI967232 
                 3 
               
               
                 M0205928 
                 4 
               
               
                 M0101742 3   
                 5 
                 1206 
                 24 
                 25 
                 26 
                 27 
               
               
                 M0129138 
                 6 
                 218 
                 28 
                 29 
                 30 
                 31 
               
               
                 BU551345 
                 7 
               
               
                 M0114388 
                 8 
                 502 
                 32 
                 33 
                 34 
                 35 
               
               
                 BU551363 
                 9 
               
               
                 M0205350 4   
                 10 
                 148 
                 36 
                 37 
                 38 
                 39 
               
               
                 M0102027 5   
                 11 
                 349 
                 40 
                 41 
                 42 
                 43 
               
               
                 BU765955 
                 12 
               
               
                 M0093116 
                 13 
                 183 
                 44 
                 45 
                 46 
                 47 
               
               
                 M0129925 
                 14 
                 328 
                 48 
                 49 
                 50 
                 51 
               
               
                 M0205537 
                 15 
               
               
                 M0202715 
                 16 
               
               
                 M0206286 
                 17 
               
               
                 M0206054 
                 18 
               
               
                 M0205375 
                 19 
               
               
                 NGMAX008197032 
                 52 
                 201 
                 53 
                 54 
                 55 
                 56 
               
               
                   
               
            
           
         
       
     
     Example 5: Oligonucleotide Probes Useful for Detecting Polymorphisms by Single Base Extension Methods 
     Oligonucleotides can also be used to detect or type the polymorphisms disclosed herein by single base extension (SBE)-based SNP detection methods. Exemplary oligonucleotides for use in SBE-based SNP detection are provided in Table 12. SBE methods are based on extension of a nucleotide primer that is hybridized to sequences adjacent to a polymorphism to incorporate a detectable nucleotide residue upon extension of the primer. It is also anticipated that the SBE method can use three synthetic oligonucleotides. Two of the oligonucleotides serve as PCR primers and are complementary to the sequence of the locus which flanks a region containing the polymorphism to be assayed. Exemplary extension primers that can be used to type polymorphisms disclosed in this invention are provided in Table 12 in the column labeled “Probe (SBE)”. Following amplification of the region containing the polymorphism, the PCR product is hybridized with an extension primer which anneals to the amplified DNA adjacent to the polymorphism. DNA polymerase and two differentially labeled dideoxynucleoside triphosphates are then provided. If the polymorphism is present on the template, one of the labeled dideoxynucleoside triphosphates can be added to the primer in a single base chain extension. The allele present is then inferred by determining which of the two differential labels was added to the extension primer. Homozygous samples will result in only one of the two labeled bases being incorporated and thus only one of the two labels will be detected. Heterozygous samples have both alleles present, and will thus direct incorporation of both labels (into different molecules of the extension primer) and thus both labels will be detected. Exemplary forward and reverse SBE probes are provided in Table 12. 
     
       
         
           
               
             
               
                 TABLE 12 
               
             
            
               
                   
               
               
                 Exemplary SBE Probes for Detecting Polymorphisms 
               
            
           
           
               
               
               
               
               
            
               
                   
                 Marker 
                   
                   
                 Probe 
               
               
                 Marker or Locus 
                 (SEQ ID 
                 SNP 
                   
                 (SEQ ID 
               
               
                 Name 
                 NO) 
                 Position 
                 Probe (SBE) 
                 NO) 
               
               
                   
               
               
                 M0101742 
                  5 
                 1206 
                 TGACTAGCATGTATCTAT 
                 26 
               
               
                   
                   
                   
                 ATGACTAACATGTATCTAT 
                 27 
               
               
                   
               
               
                 M0129138 
                  6 
                  218 
                 TGTGTCCTATATGATCTT 
                 30 
               
               
                   
                   
                   
                 TGTCCTGTATGATCTTA 
                 31 
               
               
                   
               
               
                 M0114388 
                  8 
                  502 
                 AGTTGGGCTATGCAA 
                 34 
               
               
                   
                   
                   
                 TGGGCTGTGCAAGTA 
                 35 
               
               
                   
               
               
                 M0205350 
                 10 
                  148 
                 AGTTTACACTTACAAATATT 
                 38 
               
               
                   
                   
                   
                 AGAGTTTACACTTACATATATT 
                 39 
               
               
                   
               
               
                 M0102027 
                 11 
                  349 
                 ACCCCCCTTTTTT 
                 42 
               
               
                   
                   
                   
                 ATTTTAACCCCCTTTTT 
                 43 
               
               
                   
               
               
                 M0093116 
                 13 
                  183 
                 CCAACACCAAACTA 
                 46 
               
               
                   
                   
                   
                 CAACACCAAACAAA 
                 47 
               
               
                   
               
               
                 M0129925 
                 14 
                  328 
                 AGTAGTAGCTAGTGAAATA 
                 50 
               
               
                   
                   
                   
                 AGCTAGTCAAATATTT 
                 51 
               
               
                   
               
               
                 NGMAX008197032 
                 52 
                  201 
                 TTGACAGCCTCTGGATAT 
                 55 
               
               
                   
                   
                   
                 ACAGCCTCCGGATAT 
                 56 
               
               
                   
               
            
           
         
       
     
     Example 6: Haplotypes Associated with a Malformation and Sterility Phenotypes in MG 4 Populations Upon Herbicide Application 
     The effect of different haplotypes on response to dicamba and glyphosate were evaluated by comparing genetically similar lines that contained a CP4 transgene that confers tolerance to glyphosate and a DMO transgene that confers tolerance to dicamba. In 2010, two plants from each of fourteen BC1F2:4 lines, or families, across five backcross populations were harvested individually to develop pairs of BC1F4:6 lines from each family. The haplotype of each recurrent parent for each backcross population is shown in Table 13. 
     
       
         
           
               
             
               
                 TABLE 13 
               
             
            
               
                   
               
               
                 Haplotypes Associated With Listed Recurrent Parent. 
               
            
           
           
               
               
               
            
               
                 Backcross 
                   
                 Recurrent parent haplotype 
               
            
           
           
               
               
               
               
               
            
               
                 population 
                 Recurrent parent 
                 M0101742 
                 M0205350 
                 M0102027 
               
               
                   
               
               
                 1 
                 CBL3606Q0R 
                 CC 
                 AA 
                 TT 
               
               
                 2 
                 AG4005 
                 CC 
                 AA 
                 TT 
               
               
                 3 
                 CP4408A3-C0RN 
                 CC 
                 AA 
                 TT 
               
               
                 4 
                 AG4907 
                 CC 
                 AA 
                 TT 
               
               
                 5 
                 AG4630 
                 TT 
                 AA 
                 TT 
               
               
                   
               
            
           
         
       
     
     The donor parent for each population was A3244-RR2Y/A3525-DT that had a TTTTCC haplotype for markers M0101742, M0205350, and M0102027 markers, respectively. During the breeding process, the haplotype for each line at the dicamba tolerance locus was not known. Markers were used to select for the absence of the RR1 CP4 gene, and for the presence of the RR2Y CP4 gene and the Dicamba DMO gene. The BC1F4:5 rows were sprayed with glyphosate at the V6 plant growth stage in Quillota Chile where a pair of lines per family were rated for sterility to glyphosate. Table 14 describes the breeding history for this plant material. 
     
       
         
           
               
             
               
                 TABLE 14 
               
             
            
               
                   
               
               
                 Breeding History for Plant Material in Example 6. 
               
            
           
           
               
               
               
               
               
            
               
                 Gen. 
                 Season 
                 Year 
                 Location 
                 Breeding Activity 
               
               
                   
               
               
                 Cross 
                 Winter 
                 2007 
                 Isabella, Puerto Rico 
                 Cross 
               
               
                 F1 
                 Summer 
                 2008 
                 Isabella, Puerto Rico 
                 Backcross 
               
               
                 BC1F1 
                 Winter 
                 2008 
                 Isabella, Puerto Rico 
                 Bulk 
               
               
                 BC1F2 
                 Summer 
                 2009 
                 Evansville, IN, 
                 Single plant selection 
               
               
                   
                   
                   
                 Stonington, IL, or 
               
               
                   
                   
                   
                 Galena, MD 
               
               
                 BC1F2: 
                 Summer 
                 2010 
                 Fontezuela, Argentina 
                 Progeny row 
               
               
                 3 
               
               
                 BC1F2: 
                 Summer 
                 2010 
                 Evansville, IN, 
                 Single plant selection 
               
               
                 4 
                   
                   
                 Stonington, IL, or 
               
               
                   
                   
                   
                 Galena, MD 
               
               
                 BC1F4: 
                 Summer 
                 2011 
                 Quillota, Chile 
                 Progeny row 
               
               
                 5 
               
               
                 BC1F4: 
                 Summer 
                 2011 
                 Evansville, IN, 
                 Spray trials 
               
               
                 6 
                   
                   
                 Stonington, IL, 
               
               
                   
                   
                   
                 Galena, MD, and 
               
               
                   
                   
                   
                 Stuttgart, AR 
               
               
                   
               
            
           
         
       
     
     DNA was extracted from each line to generate haplotypes across three markers at the dicamba tolerance locus. The lines were evaluated across four locations in the United States (Stuttgart, Ark.; Stonington Ill.; Evansville, Ind.; and Galena, Md.) in 2011. At each location the lines were grown in four to five foot single-row plots replicated two times and one of seven different herbicide treatments were applied at different plant growth stages (V3 or V6) as described in Table 15. 
                     TABLE 15                  Herbicide Treatments (Glyphosate and Dicamba) and Concentrations       Applied at Plant Growth Stages (V3 or V6).                                 Herbicide                       Treatment   Glyphosate   Dicamba   Glyphosate   Dicamba       Number   V3   V3   V6   V6               1   none   none   none   none       2   0.75 lb   none   none   none           a.e./acre       3   0.75 lb   none   1.5 lb   none           a.e./acre       a.e./acre       4   none   1.0 lb   none   none               a.e./acre       5   none   1.0 lb   none   1.0 lb               a.e./acre       a.e./acre       6   0.75 lb   1.0 lb   none   none           a.e./acre   a.e./acre       7   0.75 lb   1.0 lb   1.5 lb   1.0 lb           a.e./acre   a.e./acre   a.e./acre   a.e./acre                    
Rating Scale:
 
Malformation to dicamba was rated by the percentage of plants showing malformation Sterility to glyphosate was rated as:
 
A rating scale of 1: Less than 10% of plants show sterility
 
A rating scale of 2: Less than 10-50% of plants show sterility
 
A rating scale 3: Greater than 50% of plants show sterility
 
     Data were averaged across replications and locations to place into following classes as described in Table 16. 
     
       
         
           
               
             
               
                 TABLE 16 
               
             
            
               
                   
               
               
                 Haplotypes Associated with a Malformation and Sterility Phenotypes in Soybean 
               
               
                 Sister Line Pedigrees in Response to Herbicide Treatment Protocols. 
               
            
           
           
               
               
               
               
            
               
                   
                 Reaction 
                   
                   
               
               
                   
                 to Glyphosate 
                   
                 Treatment No. 
               
            
           
           
               
               
               
               
               
               
               
               
               
               
               
            
               
                 Backcross 
                   
                 in Quillota, 
                 Marker haplotype 
                 1 
                 2 
                 3 
                 4 
                 5 
                 6 
                 7 
               
            
           
           
               
               
               
               
               
               
               
            
               
                 Population 
                 Family 
                 Chile 
                 M0101742 
                 M0205350 
                 M0102027 
                 Response 
               
               
                   
               
            
           
           
               
               
               
               
               
               
               
               
               
               
               
               
               
            
               
                 1 
                 1.1 
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                 2 
                 2.1 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                 3 
                 3.1 
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                 4 
                 4.1 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
                 4.2 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.3 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.4 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.5 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.6 
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
                   
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
                 4.7 
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.8 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.9 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                 4.10 
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 S 
                 CC 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                 5 
                 5.1 
                 S 
                 TT 
                 AA 
                 TT 
                 N 
                 N 
                 S 
                 N 
                 M 
                 N 
                 M/S 
               
               
                   
                   
                 N 
                 TT 
                 TT 
                 CC 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
                 N 
               
               
                   
               
               
                 N = normal response to treatment: Average &lt;/=1.25 sterility and/or &lt;/=30% malformation 
               
               
                 S = sterility to a glyphosate treatment: Average &gt;1.25 
               
               
                 M = malformation to a dicamba treatment &gt;30% malformation 
               
               
                 M/S = malformation dicamba and sterility to glyphosate in a combination treatment 
               
            
           
         
       
     
     Example 7: Selection for Absence of Sterility to Glyphosate Application and Recovery of the Favorable Haplotype 
     As described in Example 3, marker haplotypes corresponded to reaction to glyphosate application. There were several populations grown in Fontezuela, Argentina where plants sprayed with glyphosate were selected for reproductive tolerance to glyphosate in the absence of haplotype information on each line. Table 17 describes four populations that segregated for the haplotype based on parental haplotypes. Table 18 describes the number of lines grown and the number of lines selected. 
     
       
         
           
               
             
               
                 TABLE 17 
               
             
            
               
                   
               
               
                 Four soybean populations that segregated for the preferred haplotype based on parental haplotypes. 
               
            
           
           
               
               
               
            
               
                   
                 Parent 1 
                 Parent 2 
               
            
           
           
               
               
               
               
               
               
            
               
                   
                   
                 NGMAX-008197032 
                 M-0205350 
                 NGMAX-008197032 
                 M-0205350 
               
               
                 Population 
                 Origin 
                 (SEQ ID NO: 52) 
                 (SEQ ID NO: 10) 
                 (SEQ ID NO: 52) 
                 (SEQ ID NO: 10) 
               
               
                   
               
            
           
           
               
               
               
               
               
               
            
               
                 1 
                 AG4031/AG3803- 
                 GG 
                 AA 
                 AA 
                 TT 
               
               
                   
                 T0BAH 
               
               
                 2 
                 AG4130/AG4907- 
                 AA 
                 TT 
                 GG 
                 AA 
               
               
                   
                 T0BAH 
               
               
                 3 
                 BL3510A9- 
                 AA 
                 TT 
                 GG 
                 AA 
               
               
                   
                 D0AAC/AG4907- 
               
               
                   
                 T0BAH 
               
               
                 4 
                 EI4409C3- 
                 GG 
                 AA 
                 AA 
                 TT 
               
               
                   
                 D0YN/GL4807A2- 
               
               
                   
                 D0RN- 
               
               
                   
                 T0BAH 
               
               
                   
               
            
           
         
       
     
     
       
         
           
               
             
               
                 TABLE 18 
               
             
            
               
                   
               
               
                 Number of soybean lines grown and the 
               
               
                 number of soybean lines selected. 
               
            
           
           
               
               
               
            
               
                 Population 
                 No. Lines Grown 
                 No. Lines Selected 
               
               
                   
               
            
           
           
               
               
               
            
               
                 1 
                 165 
                 2 
               
               
                 2 
                 92 
                 9 
               
               
                 3 
                 200 
                 10 
               
               
                 4 
                 260 
                 25 
               
               
                 Total 
                 717 
                 46 
               
               
                   
               
            
           
         
       
     
     The 46 selected lines were subsequently genotyped and found to possess the favorable AATT haplotype. In addition, the lines were grown at Stonington, Ill. in 2012 and evaluated for herbicide response. The lines were sprayed with 1.0 lb a.e/acre dicamba and 1.5 lb a.e/acre glyphosate at the V6 plant stage and did not show malformation to dicamba or sterility to glyphosate. These results further support the ability to use glyphosate selection as a means to recover the favorable haplotype and tolerance to both glyphosate and dicamba. 
     Example 8: Comparison of Dicamba Tolerance in Different Haplotypes Containing a Dicamba Resistance Conferring Transgene 
     The effect of different haplotypes on response to dicamba was evaluated by comparing F2 families that contained the DMO transgene for dicamba resistance, but that lacked the CP4 transgene for glyphosate resistance. F2 plants across six different populations that were growing in Kunia, Hi. in 2012 were tissue sampled and genotyped for the CP4 and DMO transgenes and for markers NGMAX008197032 and M0205350. F2 plants that were fixed homozygous for the presence of DMO and absence of CP4 and that were fixed homozygous for a haplotype class were selected and harvested individually to create families. Table 19 shows the number of F2 families per haplotype class. The F2 families were evaluated for tolerance to dicamba in a greenhouse environment. 
     
       
         
           
               
             
               
                 TABLE 19 
               
             
            
               
                   
               
               
                 Six soybean populations that segregated for the 
               
               
                 preferred haplotype based on parental haplotypes. 
               
            
           
           
               
               
            
               
                   
                 Haplotype Class 
               
            
           
           
               
               
               
            
               
                   
                 AATT 1   
                 GGAA 2   
               
            
           
           
               
               
               
            
               
                 POP 
                 ORIGIN 
                 Number of F2 plants 
               
               
                   
               
            
           
           
               
               
               
               
            
               
                 5 
                 A3525-A3244-BAH/A3431 
                 8 
                 10 
               
               
                 6 
                 DKB31-51/A3525-A3244-BAH 
                 3 
                 3 
               
               
                 8 
                 AG4903/A3525-A3244-BAH 
                 0 
                 3 
               
               
                 9 
                 AG4907/A3525-A3244-BAH 
                 2 
                 2 
               
               
                 12 
                 AG4903/(AG4903*2/A3525-A3244-BAH) 
                 0 
                 5 
               
               
                 13 
                 AG4907/GL4911A9-B0BAH 
                 0 
                 5 
               
               
                   
               
               
                   1 An “AA” allele for NGMAX-008197032 (SEQ ID NO: 52) and a “TT” allele for M020535(SEQ ID NO: 10) (i.e. “favorable” haplotype for dicamba tolerance). 
               
               
                   2 A “GG” allele for NGMAX-008197032 (SEQ ID NO: 52) and an “AA” allele for M020535(SEQ ID NO: 10) (i.e. “unfavorable” haplotype for dicamba tolerance). 
               
            
           
         
       
     
     A comparison of dicamba tolerance in the plants from segregating populations of Table 19 having various “favorable” or “unfavorable” haplotypes of the indicated parental germplasm is provided in  FIG.  1   . Plants having the favorable haplotypes (i.e. an “AA” allele for NGMAX-008197032 (SEQ ID NO:52) and a “TT” allele for M020535 (SEQ ID NO: 10) showed consistently low dicamba injury ( FIG.  1   ). 
     Example 9: Selection of Favorable Dicamba Tolerance Haplotypes with One or Two Spray Treatments 
     A comparison of selections of favorable and unfavorable dicamba tolerance haplotypes based on either one or two spray treatments was made. Transgenic soybean plants containing a dicamba resistance conferring transgene and various favorable or unfavorable haplotypes were treated with dicamba at a rate of 1 pound/acre at either: (a) the V3 and V6 stages; or (b) the V6 stage only. The results of this comparison are shown in  FIG.  2   . Selection of favorable haplotypes by using a single spray at V6 (dicamba 1 lb/a) was found to be as effective as selections with the combination of aV3 and a V6 spray treatment. 
     Having illustrated and described the principles of the present invention, it should be apparent to persons skilled in the art that the invention can be modified in arrangement and detail without departing from such principles. 
     Although the materials and methods of this invention have been described in terms of various embodiments and illustrative examples, it will be apparent to those of skill in the art that variations can be applied to the materials and methods described herein without departing from the concept, spirit and scope of the invention. All such similar substitutes and modifications apparent to those skilled in the art are deemed to be within the spirit, scope and concept of the invention as defined by the appended claims. 
     
       
         
           
               
             
               
                 TABLE 2 
               
             
            
               
                   
               
               
                 of the Specification 
               
            
           
           
               
               
               
               
               
            
               
                 Locus/Display 
                   
                 Start 
                 End 
                 ADDITIONAL LOCUS 
               
               
                 Name (1) 
                 Source (2) 
                 Base (3) 
                 Base (4) 
                 INFORMATION (5) 
               
               
                   
               
            
           
           
               
               
               
               
               
            
               
                 asmbl_11856 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 16426 
                 16586 
                 SEQ ID NO: 1 
               
               
                 TA2790_3886 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 16423 
                 17393 
                 ADP-ribosylation factor 
               
               
                   
                 release_2 
                   
                   
                 [ Vigna unguiculata   
               
               
                   
                   
                   
                   
                 (Cowpea)] 
               
               
                 TA43459_3847 
                   Glycine   —   max _release_2 
                 16434 
                 18055 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 TC276541 
                 GMGI.071508 
                 16434 
                 18076 
                 UniRef100_P36397 
               
               
                   
                   
                   
                   
                 Cluster: ADP-ribosylation 
               
               
                   
                   
                   
                   
                 factor 1; n = 1;  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: ADP- 
               
               
                   
                   
                   
                   
                 ribosylation factor 1 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress) = partial 
               
               
                   
                   
                   
                   
                 (38%) 
               
               
                 CD392203 
                   Glycine   —   max _release_2 
                 16216 
                 18687 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 BQ610865 
                   Glycine   —   max _release_2 
                 16327 
                 18667 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 EH046324 
                 
                   Arachis 
                   — 
                   stenosperma 
                   — 
                 
                 16405 
                 18745 
                 Cluster: ADP-ribosylation 
               
               
                   
                 release_5 
                   
                   
                 factor 1, n = 1,  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: ADP- 
               
               
                   
                   
                   
                   
                 ribosylation factor 1 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress) 
               
               
                 AW202311 
                   Glycine   —   max _release_2 
                 16378 
                 19070 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 TC242702 
                 GMGI.071508 
                 16234 
                 20195 
                 UniRef100_Q38JU3 
               
               
                   
                   
                   
                   
                 Cluster: ADP ribosylation 
               
               
                   
                   
                   
                   
                 factor 002; n = 2; core 
               
               
                   
                   
                   
                   
                 eudicotyledons|Rep: ADP 
               
               
                   
                   
                   
                   
                 ribosylation factor 002 - 
               
               
                   
                   
                   
                   
                   Daucus carota  (Carrot) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 BI321678 
                   Glycine   —   max _release_2 
                 17384 
                 19066 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Zea mays  (Maize)] 
               
               
                 AW348317 
                   Glycine   —   max _release_2 
                 16355 
                 20097 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 EH042959 
                 
                   Arachis 
                   — 
                   stenosperma 
                   — 
                 
                 16401 
                 20182 
                 Cluster: ADP-ribosylation 
               
               
                   
                 release_5 
                   
                   
                 factor 1, n = 2, 
               
               
                   
                   
                   
                   
                   Medicago |Rep: ADP- 
               
               
                   
                   
                   
                   
                 ribosylation factor 1 - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic) 
               
               
                 TC20337 
                 LJGI.070108 
                 16420 
                 20191 
                 UniRef100_Q5QQ33 
               
               
                   
                   
                   
                   
                 Cluster: ADP-ribosylation 
               
               
                   
                   
                   
                   
                 factor 1, n = 2, 
               
               
                   
                   
                   
                   
                   Medicago |Rep: ADP- 
               
               
                   
                   
                   
                   
                 ribosylation factor 1 - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic), complete 
               
               
                 EH047563 
                 
                   Arachis 
                   — 
                   stenosperma 
                   — 
                 
                 16430 
                 20182 
                 Cluster: ADP-ribosylation 
               
               
                   
                 release_5 
                   
                   
                 factor 1, n = 2, 
               
               
                   
                   
                   
                   
                   Medicago |Rep: ADP- 
               
               
                   
                   
                   
                   
                 ribosylation factor 1 - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic) 
               
               
                 TA2789_3886 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 16436 
                 20196 
                 ADP-ribosylation factor 1- 
               
               
                   
                 release_2 
                   
                   
                 like protein [ Solanum   
               
               
                   
                   
                   
                   
                   tuberosum  (Potato)] 
               
               
                 TA43462_3847 
                 
                   Glycine 
                   — 
                   max 
                   — 
                 
                 16229 
                 20438 
                 ADP-ribosylation factor 
               
               
                   
                 release_2 
                   
                   
                 [ Medicago sativa  (Alfalfa)] 
               
               
                 TA1120_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 16522 
                 20191 
                 ADP-ribosylation factor 
               
               
                   
                 release_1 
                   
                   
                 [ Medicago sativa  (Alfalfa)] 
               
               
                 TA2306_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 16442 
                 20440 
                 ADP-ribosylation factor 
               
               
                   
                 release_2 
                   
                   
                 [ Medicago sativa  (Alfalfa)] 
               
               
                 TC273941 
                 GMGI.071508 
                 16426 
                 20464 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q38JU3 
               
               
                   
                   
                   
                   
                 Cluster: ADP ribosylation 
               
               
                   
                   
                   
                   
                 factor 002; n = 2; core 
               
               
                   
                   
                   
                   
                 eudicotyledons|Rep: ADP 
               
               
                   
                   
                   
                   
                 ribosylation factor 002 - 
               
               
                   
                   
                   
                   
                   Daucus carota  (Carrot) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 TC238119 
                 GMGI.071508 
                 16455 
                 20449 
                 UniRef100_Q38JU3 
               
               
                   
                   
                   
                   
                 Cluster: ADP ribosylation 
               
               
                   
                   
                   
                   
                 factor 002; n = 2; core 
               
               
                   
                   
                   
                   
                 eudicotyledons|Rep: ADP 
               
               
                   
                   
                   
                   
                 ribosylation factor 002 - 
               
               
                   
                   
                   
                   
                   Daucus carota  (Carrot) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 EG373880 
                 
                   Arachis 
                   — 
                   hypogaea 
                   — 
                 
                 17101 
                 20182 
                 Cluster: ADP-ribosylation 
               
               
                   
                 release_5 
                   
                   
                 factor 1, n = 2, 
               
               
                   
                   
                   
                   
                   Medicago |Rep: ADP- 
               
               
                   
                   
                   
                   
                 ribosylation factor 1 - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic) 
               
               
                 BF066818 
                   Glycine   —   max _release_2 
                 17081 
                 20378 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 BF596154 
                   Glycine   —   max _release_2 
                 17083 
                 20397 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 AW760997 
                   Glycine   —   max _release_2 
                 17116 
                 20397 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 BF424079 
                   Glycine   —   max _release_2 
                 17112 
                 20417 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 AW596022 
                   Glycine   —   max _release_2 
                 17121 
                 20415 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 TA43446_3847 
                   Glycine   —   max _release_2 
                 17106 
                 20436 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 TA43455_3847 
                   Glycine   —   max _release_2 
                 17125 
                 20452 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 BW595867 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 17418 
                 20191 
                 ADP-ribosylation factor 
               
               
                   
                 release_1 
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 AW507598 
                   Glycine   —   max _release_2 
                 17343 
                 20437 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 TA43447_3847 
                   Glycine   —   max _release_2 
                 17343 
                 20445 
                 ADP-ribosylation factor 
               
               
                   
                   
                   
                   
                 [ Hyacinthus orientalis   
               
               
                   
                   
                   
                   
                 (Common hyacinth)] 
               
               
                 TA43448_3847 
                   Glycine   —   max _release_2 
                 17355 
                 20438 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 AW596189 
                   Glycine   —   max _release_2 
                 17358 
                 20442 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 BI469983 
                   Glycine   —   max _release_2 
                 17410 
                 20438 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 AW472058 
                   Glycine   —   max _release_2 
                 18655 
                 20160 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Daucus carota  (Carrot)] 
               
               
                 CB063805 
                   Glycine   —   max _release_2 
                 18623 
                 20432 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 BM891090 
                 GMGI.071508 
                 18995 
                 20429 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PRL9 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_27 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_27 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (42%) 
               
               
                 BM731935 
                   Glycine   —   max _release_2 
                 19949 
                 20444 
                 ADP-ribosylation factor 1 
               
               
                   
                   
                   
                   
                 [ Populus tomentosa ] 
               
               
                 AW695591 
                 MTGI.071708 
                 30054 
                 31388 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q40542 
               
               
                   
                   
                   
                   
                 Cluster: NPK2, n = 1, 
               
               
                   
                   
                   
                   
                   Nicotiana tabacum |Rep: 
               
               
                   
                   
                   
                   
                 NPK2 -  Nicotiana tabacum   
               
               
                   
                   
                   
                   
                 (Common tobacco), partial 
               
               
                   
                   
                   
                   
                 (35%) 
               
               
                 TC130040 
                 MTGI.071708 
                 30054 
                 31482 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM42 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (30%) 
               
               
                 TC122822 
                 MTGI.071708 
                 30054 
                 34162 
                 Protein kinase, Nuclear 
               
               
                   
                   
                   
                   
                 transport factor 2. SEQ 
               
               
                   
                   
                   
                   
                 ID NO: 2 
               
               
                 Pvcon9203 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 31194 
                 34247 
                 UniRef100_A7PM42 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM42_VITVI E−0 
               
               
                 TA66103_3847 
                   Glycine   —   max _release_2 
                 31879 
                 34559 
                 Protein kinase; Nuclear 
               
               
                   
                   
                   
                   
                 transport factor 2 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 CA801261 
                 GMGI.071508 
                 33896 
                 34304 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q40542 
               
               
                   
                   
                   
                   
                 Cluster: NPK2; n = 1; 
               
               
                   
                   
                   
                   
                   Nicotiana tabacum |Rep: 
               
               
                   
                   
                   
                   
                 NPK2 -  Nicotiana tabacum   
               
               
                   
                   
                   
                   
                 (Common tobacco) = partial 
               
               
                   
                   
                   
                   
                 (16%) 
               
               
                 TC120073 
                 MTGI.071708 
                 35367 
                 38178 
                 Glycoside hydrolase, 
               
               
                   
                   
                   
                   
                 family 28 
               
               
                 NP004759 
                 GMGI.071508 
                 34976 
                 39622 
                 GB|AF128266.1|AAD46483.1 
               
               
                   
                   
                   
                   
                 polygalacturonase PG1 
               
               
                 AF128266 
                   Glycine   —   max _release_2 
                 34980 
                 39622 
                 Polygalacturonase PG1 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 TA69799_3847 
                   Glycine   —   max _release_2 
                 58988 
                 65870 
                 Ubiquitin-associated 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TA7619_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 63855 
                 65940 
                 Putative DNA cytosine 
               
               
                   
                 release_1 
                   
                   
                 methyltransferase Zmet3 
               
               
                   
                   
                   
                   
                 related cluster 
               
               
                 TA8711_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 63855 
                 65940 
                 UBA-like [ Medicago   
               
               
                   
                 release_1 
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TC34762 
                 LJGI.070108 
                 65619 
                 65940 
                 NA 
               
               
                 Pvcon5587 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 65216 
                 67090 
                 UniRef100_A7PM76 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM76_VITVI 
               
               
                   
                   
                   
                   
                 E−0 
               
               
                 TA5046_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 65808 
                 67002 
                 UBA-like [ Medicago   
               
               
                   
                 release_2 
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 asmbl_11857 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 65951 
                 67042 
                 NA 
               
               
                 TA58707_3847 
                   Glycine   —   max _release_2 
                 66006 
                 67253 
                 UBA-like [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TC241193 
                 GMGI.071508 
                 66006 
                 67253 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM76 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (38%) 
               
               
                 BI967232 
                   Glycine   —   max _release_2 
                 66170 
                 67203 
                 UBA-like [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel 
               
               
                   
                   
                   
                   
                 medic)]. SEQ ID NO: 3 
               
               
                 AV417590 
                 LJGI.070108 
                 66745 
                 67090 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM76 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (19%) 
               
               
                 AV768315 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 66699 
                 67155 
                 UBA-like [ Medicago   
               
               
                   
                 release_1 
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TC32114 
                 LJGI.070108 
                 66699 
                 67275 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q76KU6 
               
               
                   
                   
                   
                   
                 Cluster: DNA 
               
               
                   
                   
                   
                   
                 methyltransferase, n = 1, 
               
               
                   
                   
                   
                   
                   Nicotiana tabacum |Rep: 
               
               
                   
                   
                   
                   
                 DNA methyltransferase - 
               
               
                   
                   
                   
                   
                 
                   Nicotiana tabacum 
                 
               
               
                   
                   
                   
                   
                 (Common tobacco), partial 
               
               
                   
                   
                   
                   
                 (20%) 
               
               
                 TA1535_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 66745 
                 67277 
                 UBA-like [ Medicago   
               
               
                   
                 release_1 
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TA2793_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 66745 
                 67277 
                 DNA methyltransferase 
               
               
                   
                 release_1 
                   
                   
                 related cluster 
               
               
                 AV768911 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 66943 
                 67155 
                 Ubiquitin-associated 
               
               
                   
                 release_1 
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 CB540531 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 73267 
                 73561 
                 UniRef100_A7PM74 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM74_VITVI 
               
               
                   
                   
                   
                   
                 5.00E−27 
               
               
                 BE347690 
                 GMGI.071508 
                 73509 
                 73770 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q5VQL1-2 
               
               
                   
                   
                   
                   
                 Cluster: Isoform 2 of 
               
               
                   
                   
                   
                   
                 Q5VQL1; n = 1;  Oryza   
               
               
                   
                   
                   
                   
                   sativa    Japonica  Group|Rep: 
               
               
                   
                   
                   
                   
                 Isoform 2 of Q5VQL1 - 
               
               
                   
                   
                   
                   
                   Oryza sativa  subsp. 
               
               
                   
                   
                   
                   
                   japonica  (Rice) = partial 
               
               
                   
                   
                   
                   
                 (5%) 
               
               
                 BE347690 
                   Glycine   —   max _release_2 
                 73509 
                 73822 
                 WW/Rsp5/WWP; 
               
               
                   
                   
                   
                   
                 Helicase = C-terminal 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BE608496 
                 GMGI.071508 
                 73444 
                 73947 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM74 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (16%) 
               
               
                 AI416763 
                 GMGI.071508 
                 74073 
                 74520 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9SP26 
               
               
                   
                   
                   
                   
                 Cluster: P72 DEAD box 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: P72 DEAD 
               
               
                   
                   
                   
                   
                 box protein -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea) = 
               
               
                   
                   
                   
                   
                 partial (16%) 
               
               
                 AI416763 
                   Glycine   —   max _release_2 
                 74073 
                 74743 
                 ATP-dependent RNA 
               
               
                   
                   
                   
                   
                 helicase-like protein DB10 
               
               
                   
                   
                   
                   
                 [ Nicotiana sylvestris  (Wood 
               
               
                   
                   
                   
                   
                 tobacco)] 
               
               
                 BW615083 
                 LJGI.070108 
                 74256 
                 74855 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM74 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (24%) 
               
               
                 TA8332_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 74256 
                 75446 
                 WW/Rsp5/WWP, Helicase, 
               
               
                   
                 release_1 
                   
                   
                 C-terminal [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TC27807 
                 LJGI.070108 
                 74343 
                 75446 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9SP26 
               
               
                   
                   
                   
                   
                 Cluster: P72 DEAD box 
               
               
                   
                   
                   
                   
                 protein, n = 1,  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: P72 DEAD 
               
               
                   
                   
                   
                   
                 box protein -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea), 
               
               
                   
                   
                   
                   
                 partial (34%) 
               
               
                 asmbl_11858 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 75228 
                 75500 
                 NA 
               
               
                 TA60825_3847 
                   Glycine   —   max _release_2 
                 74963 
                 75981 
                 P72 DEAD box protein 
               
               
                   
                   
                   
                   
                 [ Pisum sativum  (Garden 
               
               
                   
                   
                   
                   
                 pea)] 
               
               
                 TC249436 
                 GMGI.071508 
                 74985 
                 75966 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9SP26 
               
               
                   
                   
                   
                   
                 Cluster: P72 DEAD box 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: P72 DEAD 
               
               
                   
                   
                   
                   
                 box protein -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea) = 
               
               
                   
                   
                   
                   
                 partial (12%) 
               
               
                 TC269249 
                 GMGI.071508 
                 86882 
                 87576 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM72 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (42%) 
               
               
                 TA64136_3847 
                   Glycine   —   max _release_2 
                 86882 
                 89066 
                 Putative 
               
               
                   
                   
                   
                   
                 phosphate/phosphoenolpyruvate 
               
               
                   
                   
                   
                   
                 translocator 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CO982132 
                   Glycine   —   max _release_2 
                 87225 
                 91497 
                 Phosphate/phosphoenolpyruvate 
               
               
                   
                   
                   
                   
                 translocator 
               
               
                   
                   
                   
                   
                 [ Nicotiana tabacum   
               
               
                   
                   
                   
                   
                 (Common tobacco)] 
               
               
                 TC274531 
                 GMGI.071508 
                 87225 
                 91497 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A4UTS3 
               
               
                   
                   
                   
                   
                 Cluster: Chloroplast 
               
               
                   
                   
                   
                   
                 phosphoenolpyruvate/ 
               
               
                   
                   
                   
                   
                 phosphate translocator; 
               
               
                   
                   
                   
                   
                 n = 1;  Pisum sativum |Rep: 
               
               
                   
                   
                   
                   
                 Chloroplast phosphoenolpyruvate/ 
               
               
                   
                   
                   
                   
                 phosphate 
               
               
                   
                   
                   
                   
                 translocator -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea) = 
               
               
                   
                   
                   
                   
                 partial (53%) 
               
               
                 Pvcon2802 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 87119 
                 92616 
                 UniRef100_A9PD12 
               
               
                   
                   
                   
                   
                 Putative uncharacterized 
               
               
                   
                   
                   
                   
                 protein n = 1 Tax =  Populus   
               
               
                   
                   
                   
                   
                 
                   trichocarpa 
                 
               
               
                   
                   
                   
                   
                 RepID = A9PD12_POPTR 
               
               
                   
                   
                   
                   
                 1.00E−121 
               
               
                 TA4406_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 89055 
                 92616 
                 Phosphate/phosphoenolpyruvate 
               
               
                   
                 release_2 
                   
                   
                 translocator 
               
               
                   
                   
                   
                   
                 [ Nicotiana tabacum   
               
               
                   
                   
                   
                   
                 (Common tobacco)] 
               
               
                 TA74766_3847 
                   Glycine   —   max _release_2 
                 91397 
                 92725 
                 Phosphoenolpyruvate/ 
               
               
                   
                   
                   
                   
                 phosphate translocator 
               
               
                   
                   
                   
                   
                 [ Mesembryanthemum   
               
               
                   
                   
                   
                   
                   crystallinum  (Common ice 
               
               
                   
                   
                   
                   
                 plant)] 
               
               
                 TC265023 
                 GMGI.071508 
                 91686 
                 92725 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM71 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (15%) 
               
               
                 M0205928 
                 SEQ. LISTING 
                 92718 
                 92334 
                 SEQ ID NO: 4 
               
               
                 BG406195 
                 GMGI.071508 
                 107039 
                 107366 
               
               
                 BG406195 
                   Glycine   —   max _release_2 
                 107039 
                 107375 
                 NA 
               
               
                 M0101742 
                 SEQ. LISTING 
                 112189 
                 113483 
                 SEQ ID NO: 5 
               
               
                 BG550728 
                 GMGI.071508 
                 112663 
                 113757 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM60 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (13%) 
               
               
                 BG550728 
                   Glycine   —   max _release_2 
                 112663 
                 113867 
                 Receptor-like 
               
               
                   
                   
                   
                   
                 serine/threonine kinase 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CV535605 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 112548 
                 113982 
                 UniRef100_A7PM60 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM60_VITVI 
               
               
                   
                   
                   
                   
                 9.00E−79 
               
               
                 M0129138 
                 SEQ. LISTING 
                 114532 
                 113494 
                 SEQ ID NO: 6 
               
               
                 BU551345 
                   Glycine   —   max _release_2 
                 115956 
                 116339 
                 SEQ ID NO: 7 
               
               
                 TA58315_3847 
                   Glycine   —   max _release_2 
                 118318 
                 120087 
                 NA 
               
               
                 TC236438 
                 GMGI.071508 
                 118318 
                 120087 
                 NA 
               
               
                 BE611751 
                   Glycine   —   max _release_2 
                 119165 
                 119645 
                 NA 
               
               
                 BE611751 
                 GMGI.071508 
                 119229 
                 119645 
                 NA 
               
               
                 TA70371_3847 
                   Glycine   —   max _release_2 
                 137417 
                 137864 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TC267549 
                 GMGI.071508 
                 137417 
                 137864 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9FI64 
               
               
                   
                   
                   
                   
                 Cluster: Genomic DNA = 
               
               
                   
                   
                   
                   
                 chromosome 5 = TAC 
               
               
                   
                   
                   
                   
                 clone: K21I16; n = 1; 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Genomic DNA = 
               
               
                   
                   
                   
                   
                 chromosome 5 = TAC 
               
               
                   
                   
                   
                   
                 clone: K21I16 -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress) = 
               
               
                   
                   
                   
                   
                 partial (43%) 
               
               
                 BG156330 
                 GMGI.071508 
                 155872 
                 156903 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM41 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 2;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (23%) 
               
               
                 BG156330 
                   Glycine   —   max _release_2 
                 155872 
                 157058 
                 WD40-like [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 Pvcon10326 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 155691 
                 157835 
                 UniRef100_A7PM41 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM41_VITVI 
               
               
                   
                   
                   
                   
                 3.00E−93 
               
               
                 CD397113 
                   Glycine   —   max _release_2 
                 157474 
                 157813 
                 NA 
               
               
                 TA12653_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 159489 
                 161341 
                 NADP-specific isocitrate 
               
               
                   
                 release_1 
                   
                   
                 dehydrogenase [ Lupinus   
               
               
                   
                   
                   
                   
                   albus  (White lupin)] 
               
               
                 TC27381 
                 LJGI.070108 
                 159489 
                 161341 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q7Y0W7 
               
               
                   
                   
                   
                   
                 Cluster: NADP-specific 
               
               
                   
                   
                   
                   
                 isocitrate dehydrogenase, 
               
               
                   
                   
                   
                   
                 n = 1,  Lupinus albus |Rep: 
               
               
                   
                   
                   
                   
                 NADP-specific isocitrate 
               
               
                   
                   
                   
                   
                 dehydrogenase -  Lupinus   
               
               
                   
                   
                   
                   
                   albus  (White lupin), partial 
               
               
                   
                   
                   
                   
                 (25%) 
               
               
                 DT084057 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 161638 
                 162192 
                 NADP-specific isocitrate 
               
               
                   
                 release_2 
                   
                   
                 dehydrogenase [ Lupinus   
               
               
                   
                   
                   
                   
                   albus  (White lupin)] 
               
               
                 BE661051 
                   Glycine   —   max _release_2 
                 170271 
                 172034 
                 Cyclin-like F-box 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TA11305_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 170700 
                 172307 
                 Cyclin-like F-box 
               
               
                   
                 release_1 
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TC34049 
                 LJGI.070108 
                 170700 
                 172307 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PF14 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr11 scaffold_13, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr11 
               
               
                   
                   
                   
                   
                 scaffold_13, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (32%) 
               
               
                 NP7256876 
                 MTGI.071708 
                 171929 
                 173188 
                 GB|AC157983.16|ABE865 
               
               
                   
                   
                   
                   
                 10.1 Cyclin-like F-box 
               
               
                 TA68495_3847 
                   Glycine   —   max _release_2 
                 194920 
                 195696 
                 Oleosin [ Sesamum indicum   
               
               
                   
                   
                   
                   
                 (Oriental sesame) 
               
               
                   
                   
                   
                   
                 (Gingelly)] 
               
               
                 TC265354 
                 GMGI.071508 
                 194920 
                 195696 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_P29530 
               
               
                   
                   
                   
                   
                 Cluster: P24 oleosin 
               
               
                   
                   
                   
                   
                 isoform A; n = 1;  Glycine   
               
               
                   
                   
                   
                   
                   max |Rep: P24 oleosin 
               
               
                   
                   
                   
                   
                 isoform A -  Glycine max   
               
               
                   
                   
                   
                   
                 (Soybean) = partial (40%) 
               
               
                 BE658264 
                   Glycine   —   max _release_2 
                 195176 
                 195925 
                 Oleosin [ Sesamum indicum   
               
               
                   
                   
                   
                   
                 (Oriental sesame) 
               
               
                   
                   
                   
                   
                 (Gingelly)] 
               
               
                 CV539661 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 217885 
                 218101 
                 No significant hit (e−20) 
               
               
                 CA912681 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 220374 
                 220748 
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                 release_2 
                   
                   
                 genomic DNA, 
               
               
                   
                   
                   
                   
                 chromosome 3, P1 clone: 
               
               
                   
                   
                   
                   
                 MGF10 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 CA785107 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 221393 
                 221885 
                 NA 
               
               
                   
                 release_2 
               
               
                 TC276537 
                 GMGI.071508 
                 221407 
                 222104 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q4RYK7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 3 
               
               
                   
                   
                   
                   
                 SCAF14975 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Tetraodon   
               
               
                   
                   
                   
                   
                   nigroviridis |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome 3 
               
               
                   
                   
                   
                   
                 SCAF14975 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                 
                   Tetraodon nigroviridis 
                 
               
               
                   
                   
                   
                   
                 (Green puffer) = partial 
               
               
                   
                   
                   
                   
                 (21%) 
               
               
                 TA71044_3847 
                   Glycine   —   max _release_2 
                 221407 
                 222133 
                 NA 
               
               
                 CD406643 
                   Glycine   —   max _release_2 
                 222113 
                 222297 
                 NA 
               
               
                 AV416316 
                 LJGI.070108 
                 223773 
                 223869 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM35 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (9%) 
               
               
                 EC911350 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 224587 
                 225958 
                 UniRef100_A5C233 
               
               
                   
                   
                   
                   
                 Putative uncharacterized 
               
               
                   
                   
                   
                   
                 protein n = 1 Tax =  Vitis   
               
               
                   
                   
                   
                   
                 
                   vinifera 
                 
               
               
                   
                   
                   
                   
                 RepID = A5C233_VITVI 
               
               
                   
                   
                   
                   
                 3.00E−77 
               
               
                 BU760697 
                 GMGI.071508 
                 224857 
                 225965 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM35 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (22%) 
               
               
                 BU760697 
                   Glycine   —   max _release_2 
                 224857 
                 226145 
                 Protein At5g19130 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC119982 
                 MTGI.071708 
                 224248 
                 226812 
                 Gaa1-like, GPI 
               
               
                   
                   
                   
                   
                 transamidase component 
               
               
                 CV541515 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 225934 
                 226374 
                 UniRef100_A7PM35 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM35_VITVI 
               
               
                   
                   
                   
                   
                 2.00E−34 
               
               
                 TA76349_3847 
                   Glycine   —   max _release_2 
                 226118 
                 226768 
                 Protein At5g19130 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TA12045_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 226354 
                 226789 
                 GPAA1-like protein related 
               
               
                   
                 release_1 
                   
                   
                 cluster 
               
               
                 TA13675_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 226354 
                 226789 
                 Protein At5g19130 
               
               
                   
                 release_1 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC29330 
                 LJGI.070108 
                 226354 
                 226789 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM35 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (13%) 
               
               
                 NP7254537 
                 MTGI.071708 
                 233411 
                 237212 
                 GB|AC152349.11|ABP03404.1 
               
               
                   
                   
                   
                   
                 Protein of unknown 
               
               
                   
                   
                   
                   
                 function DUF266, plant 
               
               
                 EH256962 
                 GMGI.071508 
                 235306 
                 237649 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM54 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (33%) 
               
               
                 CX708677 
                   Glycine   —   max _release_2 
                 247269 
                 248145 
                 NA 
               
               
                 BW599077 
                 LJGI.070108 
                 255475 
                 261945 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QD90 
               
               
                   
                   
                   
                   
                 Cluster: Peptidyl-prolyl cis- 
               
               
                   
                   
                   
                   
                 trans isomerase, n = 1,  Vitis   
               
               
                   
                   
                   
                   
                   vinifera |Rep: Peptidyl- 
               
               
                   
                   
                   
                   
                 prolyl cis-trans isomerase - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape), 
               
               
                   
                   
                   
                   
                 partial (18%) 
               
               
                 BW625918 
                 LJGI.070108 
                 257810 
                 262980 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q93YQ8 
               
               
                   
                   
                   
                   
                 Cluster: Peptidyl-prolyl cis- 
               
               
                   
                   
                   
                   
                 trans isomerase, n = 1, 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Peptidyl-prolyl cis-trans 
               
               
                   
                   
                   
                   
                 isomerase -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress), 
               
               
                   
                   
                   
                   
                 partial (32%) 
               
               
                 DT083826 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 260886 
                 261121 
                 NA 
               
               
                   
                 release_2 
               
               
                 CB063628 
                 GMGI.071508 
                 271592 
                 271900 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM52 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: = 
               
               
                   
                   
                   
                   
                 partial (2%) 
               
               
                 CB063628 
                   Glycine   —   max _release_2 
                 271592 
                 271928 
                 NA 
               
               
                 TA5835_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 273868 
                 275906 
                 Vegetative cell wall protein 
               
               
                   
                 release_1 
                   
                   
                 gp1-like [ Oryza sativa   
               
               
                   
                   
                   
                   
                 ( japonica  cultivar-group) 
               
               
                 TC32024 
                 LJGI.070108 
                 275152 
                 275906 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM52 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (9%) 
               
               
                 TC252667 
                 GMGI.071508 
                 275739 
                 276506 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM52 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (12%) 
               
               
                 AW311416 
                   Glycine   —   max _release_2 
                 276269 
                 276455 
                 NA 
               
               
                 WmFPC_Contig850 
                   
                 99810 
                 475910 
                 NA 
               
               
                 CV534998 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 288050 
                 288585 
                 UniRef100_A7PM50 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM50_VITVI 
               
               
                   
                   
                   
                   
                 6.00E−39 
               
               
                 TA75806_3847 
                   Glycine   —   max _release_2 
                 288290 
                 290376 
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 genomic DNA = 
               
               
                   
                   
                   
                   
                 chromosome 3 = P1 clone: 
               
               
                   
                   
                   
                   
                 MGF10 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC276120 
                 GMGI.071508 
                 288290 
                 290376 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM50 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (62%) 
               
               
                 BI786388 
                 GMGI.071508 
                 291666 
                 292088 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM49 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (7%) 
               
               
                 BI786388 
                   Glycine   —   max _release_2 
                 291666 
                 292099 
                 NA 
               
               
                 TA63308_3847 
                   Glycine   —   max _release_2 
                 291633 
                 294397 
                 NA 
               
               
                 TC243765 
                 GMGI.071508 
                 293681 
                 294426 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q0JDM0 
               
               
                   
                   
                   
                   
                 Cluster: Os04g0394300 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Oryza sativa   
               
               
                   
                   
                   
                   
                   Japonica  Group|Rep: 
               
               
                   
                   
                   
                   
                 Os04g0394300 protein - 
               
               
                   
                   
                   
                   
                   Oryza sativa  subsp. 
               
               
                   
                   
                   
                   
                   japonica  (Rice) = partial 
               
               
                   
                   
                   
                   
                 (3%) 
               
               
                 TA6412_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 293803 
                 294412 
                 NA 
               
               
                   
                 release_1 
               
               
                 TC24112 
                 LJGI.070108 
                 293803 
                 294412 
                 NA 
               
               
                 CA899930 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 294054 
                 294263 
                 NA 
               
               
                   
                 release_2 
               
               
                 TA3887_3886 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 302301 
                 303033 
                 Hypothetical protein 
               
               
                   
                 release_2 
                   
                   
                 MJH23.3 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 AW705271 
                   Glycine   —   max _release_2 
                 302299 
                 303855 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 MJH23.3 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC237313 
                 GMGI.071508 
                 303227 
                 306007 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM30 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (54%) 
               
               
                 TA61594_3847 
                   Glycine   —   max _release_2 
                 303227 
                 306056 
                 Similarity to RNA binding 
               
               
                   
                   
                   
                   
                 protein [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 asmbl_11859 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 303952 
                 305921 
                 NA 
               
               
                 toGm05 
                 DAGchainer 
                 30059 
                 580791 
                 Ks0.2335 
               
               
                 BU544029 
                   Glycine   —   max _release_2 
                 305220 
                 305762 
                 NA 
               
               
                 TC23280 
                 LJGI.070108 
                 305373 
                 305839 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM30 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (17%) 
               
               
                 AI461058 
                   Glycine   —   max _release_2 
                 305614 
                 305834 
                 NA 
               
               
                 BE555571 
                   Glycine   —   max _release_2 
                 305656 
                 306011 
                 NA 
               
               
                 NGMAX008197032 
                 SEQ. LISTING 
                 314847 
                 315148 
                 SEQ ID NO: 52 
               
               
                 asmbl_11860 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 319622 
                 320527 
                 NA 
               
               
                 EV270366 
                 GMGI.071508 
                 319893 
                 320575 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_P15792 
               
               
                   
                   
                   
                   
                 Cluster: Protein kinase 
               
               
                   
                   
                   
                   
                 PVPK-1; n = 1;  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris |Rep: Protein kinase 
               
               
                   
                   
                   
                   
                 PVPK-1 -  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris  (Kidney bean) 
               
               
                   
                   
                   
                   
                 (French bean) = partial 
               
               
                   
                   
                   
                   
                 (34%) 
               
               
                 J04555 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 318937 
                 322709 
                 Protein kinase PVPK-1 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 TA11578_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 320355 
                 322024 
                 Protein kinase PVPK-1 
               
               
                   
                 release_1 
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 TC35252 
                 LJGI.070108 
                 320355 
                 322381 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P15792 
               
               
                   
                   
                   
                   
                 Cluster: Protein kinase 
               
               
                   
                   
                   
                   
                 PVPK-1, n = 1,  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris |Rep: Protein kinase 
               
               
                   
                   
                   
                   
                 PVPK-1 -  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris  (Kidney bean) 
               
               
                   
                   
                   
                   
                 (French bean), partial 
               
               
                   
                   
                   
                   
                 (48%) 
               
               
                 Pvcon4227 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 320098 
                 322709 
                 UniRef100_P15792 Protein 
               
               
                   
                   
                   
                   
                 kinase PVPK-1 n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 RepID = KPK1_PHAVU E−0 
               
               
                 CA900819 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 325129 
                 325547 
                 Sucrase-like protein 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CA900820 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 325119 
                 328122 
                 AT3g27570/MMJ24_12 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC269193 
                 GMGI.071508 
                 325136 
                 329359 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM27 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (47%) 
               
               
                 TA4354_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 325476 
                 329154 
                 AT5g40510/MNF13_30 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 asmbl_11861 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 326881 
                 329154 
                 NA 
               
               
                 CF920945 
                   Glycine   —   max _release_2 
                 326967 
                 329359 
                 AT3g27570/MMJ24_12 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 SATT723 
                   
                 337605 
                 337828 
               
               
                 Satt723 
                 ePCR 
                 337605 
                 337828 
                 Map3.0 SSR L/Gm19 cM: 
               
               
                   
                   
                   
                   
                 1.5 
               
               
                 TC244213 
                 GMGI.071508 
                 354373 
                 354996 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PL06 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_20 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_20 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (17%) 
               
               
                 BU090380 
                   Glycine   —   max _release_2 
                 354683 
                 354871 
                 NA 
               
               
                 BP058294 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 355950 
                 356319 
                 Protein ycf2 [ Lotus   
               
               
                   
                 release_1 
                   
                   
                   japonicus ] 
               
               
                 Pvcon2444 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 354593 
                 360732 
                 UniRef100_A7PL07 
               
               
                   
                   
                   
                   
                 Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_20, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PL07_VITVI 
               
               
                   
                   
                   
                   
                 1.00E−144 
               
               
                 asmbl_11862 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 359273 
                 359896 
                 NA 
               
               
                 CA800649 
                   Glycine   —   max _release_2 
                 377994 
                 379933 
                 AT3g01590/F4P13_13 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC245493 
                 GMGI.071508 
                 377994 
                 381638 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM21 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (96%) 
               
               
                 CO984617 
                   Glycine   —   max _release_2 
                 379899 
                 381537 
                 At5g14500 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 M0114388 
                 SEQ. LISTING 
                 381308 
                 380486 
                 SEQ ID NO: 8 
               
               
                 AW704585 
                   Glycine   —   max _release_2 
                 381210 
                 381673 
                 At5g14500 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC248588 
                 GMGI.071508 
                 383419 
                 383857 
                 NA 
               
               
                 asmbl_11863 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 383428 
                 384088 
                 NA 
               
               
                 TC126554 
                 MTGI.071708 
                 383593 
                 384668 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q940C3 
               
               
                   
                   
                   
                   
                 Cluster: 
               
               
                   
                   
                   
                   
                 AT3g27530/MMJ24_7, 
               
               
                   
                   
                   
                   
                 n = 2,  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: 
               
               
                   
                   
                   
                   
                 AT3g27530/MMJ24_7 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress), partial 
               
               
                   
                   
                   
                   
                 (38%) 
               
               
                 AJ002216 
                 
                   Pisum 
                   — 
                   sativum 
                   — 
                 
                 384088 
                 384751 
                 Emb|CAA07228.1 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 BI702257 
                 GMGI.071508 
                 384067 
                 384789 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q940C3 
               
               
                   
                   
                   
                   
                 Cluster: 
               
               
                   
                   
                   
                   
                 AT3g27530/MMJ24_7; 
               
               
                   
                   
                   
                   
                 n = 2;  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: 
               
               
                   
                   
                   
                   
                 AT3g27530/MMJ24_7 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress) = partial 
               
               
                   
                   
                   
                   
                 (14%) 
               
               
                 BG451913 
                 MTGI.071708 
                 386353 
                 388007 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9LT59 
               
               
                   
                   
                   
                   
                 Cluster: Emb|CAA07228.1, 
               
               
                   
                   
                   
                   
                 n = 1,  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Emb|CAA07228.1 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress), partial 
               
               
                   
                   
                   
                   
                 (19%) 
               
               
                 CV533025 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 388647 
                 389345 
                 UniRef100_UPI000016357E 
               
               
                   
                   
                   
                   
                 GC6 (GOLGIN 
               
               
                   
                   
                   
                   
                 CANDIDATE 6) binding/ 
               
               
                   
                   
                   
                   
                 protein transporter 
               
               
                   
                   
                   
                   
                 Tax = n = 1 
               
               
                   
                   
                   
                   
                 RepID = UPI000016357E 
               
               
                   
                   
                   
                   
                 6.00E−27 
               
               
                 AV777312 
                 LJGI.070108 
                 389152 
                 391279 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9LT59 
               
               
                   
                   
                   
                   
                 Cluster: Emb|CAA07228.1, 
               
               
                   
                   
                   
                   
                 n = 1,  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Emb|CAA07228.1 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress), partial 
               
               
                   
                   
                   
                   
                 (19%) 
               
               
                 BM187543 
                 GMGI.071508 
                 394984 
                 395407 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM13 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (36%) 
               
               
                 BM187543 
                   Glycine   —   max _release_2 
                 394984 
                 395559 
                 Gb|AAF01546.1 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 [Mouse-ear cress)] 
               
               
                 DN652256 
                 LJGI.070108 
                 395487 
                 395708 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7P4B1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence, n = 1, 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (19%) 
               
               
                 DT044393 
                 
                   Arachis 
                   — 
                   hypogaea 
                   — 
                 
                 395462 
                 395746 
                 Cluster: Hypothetical 
               
               
                   
                 release_5 
                   
                   
                 protein T23K23.27, n = 1, 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 T23K23.27 -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress) 
               
               
                 FD789910 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 395555 
                 395927 
                 UniRef100_A7P4B1 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7P4B1_VITVI 
               
               
                   
                   
                   
                   
                 2.00E−59 
               
               
                 EH259382 
                 GMGI.071508 
                 395577 
                 396156 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM13 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (34%) 
               
               
                 TA69305_3847 
                   Glycine   —   max _release_2 
                 403237 
                 404175 
                 NA 
               
               
                 TC243910 
                 GMGI.071508 
                 403237 
                 404175 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM14 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (5%) 
               
               
                 CA785084 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 403526 
                 404055 
                 NA 
               
               
                   
                 release_2 
               
               
                 CV541170 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 404688 
                 406556 
                 UniRef100_Q9LT57 
               
               
                   
                   
                   
                   
                 Emb|CAB45506.1 n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 RepID = Q9LT57_ARATH 
               
               
                   
                   
                   
                   
                 1.00E−113 
               
               
                 BF071095 
                 GMGI.071508 
                 406510 
                 407127 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9LT57 
               
               
                   
                   
                   
                   
                 Cluster: Emb|CAB45506.1; 
               
               
                   
                   
                   
                   
                 n = 1;  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Emb|CAB45506.1 - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress) = partial 
               
               
                   
                   
                   
                   
                 (8%) 
               
               
                 BF071095 
                   Glycine   —   max _release_2 
                 406527 
                 407127 
                 NA 
               
               
                 BM270669 
                   Glycine   —   max _release_2 
                 409910 
                 410532 
                 NA 
               
               
                 BM270669 
                 GMGI.071508 
                 410045 
                 410532 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM16 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (9%) 
               
               
                 BG550673 
                 GMGI.071508 
                 421541 
                 422250 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM12 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (26%) 
               
               
                 BG550673 
                   Glycine   —   max _release_2 
                 421541 
                 422354 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 F18O22_260 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 BU551363 
                   Glycine   —   max _release_2 
                 422150 
                 422745 
                 SEQ ID NO: 9 
               
               
                 CD407423 
                   Glycine   —   max _release_2 
                 423719 
                 423842 
                 NA 
               
               
                 M0205350 
                 SEQ Listing 
                 424095 
                 423776 
                 SEQ ID NO: 10 
               
               
                 EV270239 
                 GMGI.071508 
                 425649 
                 426181 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q0WVR7 
               
               
                   
                   
                   
                   
                 Cluster: TRNA synthase- 
               
               
                   
                   
                   
                   
                 like protein; n = 1; 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 TRNA synthase-like 
               
               
                   
                   
                   
                   
                 protein -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress) = 
               
               
                   
                   
                   
                   
                 partial (5%) 
               
               
                 BI424448 
                 GMGI.071508 
                 451332 
                 451679 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_P82353 
               
               
                   
                   
                   
                   
                 Cluster: Non-specific lipid- 
               
               
                   
                   
                   
                   
                 transfer protein 2; n = 1; 
               
               
                   
                   
                   
                   
                   Prunus armeniaca |Rep: 
               
               
                   
                   
                   
                   
                 Non-specific lipid-transfer 
               
               
                   
                   
                   
                   
                 protein 2 -  Prunus   
               
               
                   
                   
                   
                   
                   armeniaca  (Apricot) = 
               
               
                   
                   
                   
                   
                 partial (68%) 
               
               
                 TA49179_3847 
                   Glycine   —   max _release_2 
                 451332 
                 451827 
                 Nonspecific lipid-transfer 
               
               
                   
                   
                   
                   
                 protein 2 [ Prunus   
               
               
                   
                   
                   
                   
                   armeniaca  (Apricot)] 
               
               
                 TC252453 
                 GMGI.071508 
                 451397 
                 451828 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q43681 
               
               
                   
                   
                   
                   
                 Cluster: Probable non- 
               
               
                   
                   
                   
                   
                 specific lipid-transfer 
               
               
                   
                   
                   
                   
                 protein AKCS9 precursor; 
               
               
                   
                   
                   
                   
                 n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   unguiculata |Rep: Probable 
               
               
                   
                   
                   
                   
                 non-specific lipid-transfer 
               
               
                   
                   
                   
                   
                 protein AKCS9 precursor - 
               
               
                   
                   
                   
                   
                 
                   Vigna unguiculata 
                 
               
               
                   
                   
                   
                   
                 (Cowpea) = partial (86%) 
               
               
                 BE609938 
                   Glycine   —   max _release_2 
                 451607 
                 451756 
                 Probable lipid transfer 
               
               
                   
                   
                   
                   
                 protein family protein 
               
               
                   
                   
                   
                   
                 [ Tamarix androssowii ] 
               
               
                 BQ612382 
                   Glycine   —   max _release_2 
                 451777 
                 452217 
                 NA 
               
               
                 M0102027 
                   
                 466228 
                 466889 
                 SEQ ID NO: 11 
               
               
                 Pvcon7917 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 466120 
                 467338 
                 UniRef100_A5C9E2 
               
               
                   
                   
                   
                   
                 Putative uncharacterized 
               
               
                   
                   
                   
                   
                 protein n = 1 Tax =  Vitis   
               
               
                   
                   
                   
                   
                 
                   vinifera 
                 
               
               
                   
                   
                   
                   
                 RepID = A5C9E2_VITVI 
               
               
                   
                   
                   
                   
                 6.00E−44 
               
               
                 asmbl_11864 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 467520 
                 468191 
                 NA 
               
               
                 TA49596_3847 
                   Glycine   —   max _release_2 
                 470086 
                 472059 
                 Methionine aminopeptidase 
               
               
                   
                   
                   
                   
                 2B [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC255857 
                 GMGI.071508 
                 470086 
                 476828 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PXX3 
               
               
                   
                   
                   
                   
                 Cluster: Methionine 
               
               
                   
                   
                   
                   
                 aminopeptidase; n = 1;  Vitis   
               
               
                   
                   
                   
                   
                   vinifera |Rep: Methionine 
               
               
                   
                   
                   
                   
                 aminopeptidase -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (91%) 
               
               
                 FD792539 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 472774 
                 475674 
                 UniRef100_A7PXX3 
               
               
                   
                   
                   
                   
                 Methionine aminopeptidase 
               
               
                   
                   
                   
                   
                 n = 1 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PXX3_VITVI 
               
               
                   
                   
                   
                   
                 5.00E−56 
               
               
                 TA3829_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 471918 
                 476623 
                 Methionine aminopeptidase 
               
               
                   
                 release_2 
                   
                   
                 2B [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 BU765955 
                   Glycine   —   max _release_2 
                 472787 
                 475846 
                 Methionine 
               
               
                   
                   
                   
                   
                 aminopeptidase 2B 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)]. SEQ 
               
               
                   
                   
                   
                   
                 ID NO: 12 
               
               
                 EG530516 
                 
                   Arachis 
                   — 
                   hypogaea 
                   — 
                 
                 472835 
                 476690 
                 Cluster: Methionine 
               
               
                   
                 release_5 
                   
                   
                 aminopeptidase 2B, n = 1, 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Methionine aminopeptidase 
               
               
                   
                   
                   
                   
                 2B -  Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress) 
               
               
                 AV425234 
                 LJGI.070108 
                 475562 
                 475924 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PXX3 
               
               
                   
                   
                   
                   
                 Cluster: Methionine 
               
               
                   
                   
                   
                   
                 aminopeptidase, n = 1,  Vitis   
               
               
                   
                   
                   
                   
                   vinifera |Rep: Methionine 
               
               
                   
                   
                   
                   
                 aminopeptidase -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (22%) 
               
               
                 TA49598_3847 
                   Glycine   —   max _release_2 
                 474794 
                 476709 
                 Methionine aminopeptidase 
               
               
                   
                   
                   
                   
                 2B [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 FD797260 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 475768 
                 476654 
                 UniRef100_A7PXX3 
               
               
                   
                   
                   
                   
                 Methionine aminopeptidase 
               
               
                   
                   
                   
                   
                 n = 1 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PXX3_VITVI 
               
               
                   
                   
                   
                   
                 6.00E−55 
               
               
                 BE823844 
                   Glycine   —   max _release_2 
                 475751 
                 476828 
                 Methionine aminopeptidase 
               
               
                   
                   
                   
                   
                 2B [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 BG726070 
                   Glycine   —   max _release_2 
                 476668 
                 476807 
                 NA 
               
               
                 BQ080926 
                 GMGI.071508 
                 480002 
                 480636 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PY54 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr15 scaffold_37 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr15 
               
               
                   
                   
                   
                   
                 scaffold_37 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (39%) 
               
               
                 TA69442_3847 
                   Glycine   —   max _release_2 
                 480002 
                 481069 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 F22I13.40 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC262427 
                 GMGI.071508 
                 480002 
                 481069 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7P8Q6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr3 
               
               
                   
                   
                   
                   
                 scaffold_8 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr3 
               
               
                   
                   
                   
                   
                 scaffold_8 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (20%) 
               
               
                 BU548976 
                   Glycine   —   max _release_2 
                 481474 
                 481970 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 CX547082 
                   Glycine   —   max _release_2 
                 481345 
                 482173 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TC236122 
                 GMGI.071508 
                 481300 
                 482612 
                 NA 
               
               
                 TA57759_3847 
                   Glycine   —   max _release_2 
                 481300 
                 482627 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 AV420909 
                 LJGI.070108 
                 481846 
                 482201 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QTE8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined scaffold_167, 
               
               
                   
                   
                   
                   
                 whole genome shotgun 
               
               
                   
                   
                   
                   
                 sequence, n = 1,  Vitis   
               
               
                   
                   
                   
                   
                   vinifera |Rep: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined scaffold_167, 
               
               
                   
                   
                   
                   
                 whole genome shotgun 
               
               
                   
                   
                   
                   
                 sequence -  Vitis vinifera   
               
               
                   
                   
                   
                   
                 (Grape), partial (24%) 
               
               
                 AW597322 
                   Glycine   —   max _release_2 
                 481965 
                 482825 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BM270610 
                   Glycine   —   max _release_2 
                 482034 
                 483008 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BI972603 
                 GMGI.071508 
                 482632 
                 483190 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7P3G6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (20%) 
               
               
                 BI972603 
                   Glycine   —   max _release_2 
                 482632 
                 484113 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TA66198_3847 
                   Glycine   —   max _release_2 
                 482595 
                 484230 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TC253566 
                 GMGI.071508 
                 482648 
                 484405 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QTE8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_167 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_167 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (44%) 
               
               
                 asmbl_11865 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 482937 
                 484289 
                 NA 
               
               
                 BG881371 
                   Glycine   —   max _release_2 
                 483075 
                 484230 
                 Multi antimicrobial 
               
               
                   
                   
                   
                   
                 extrusion protein MatE 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 WmFPC_Contig7443 
                   
                 384071 
                 598745 
                 NA 
               
               
                 AW695419 
                 MTGI.071708 
                 491367 
                 494466 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PU69 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_31, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence, n = 1, 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_31, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (11%) 
               
               
                 BF645755 
                 MTGI.071708 
                 494870 
                 497474 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PU69 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_31, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence, n = 1, 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_31, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (14%) 
               
               
                 BE475242 
                 GMGI.071508 
                 497000 
                 497327 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7NWE7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr5 
               
               
                   
                   
                   
                   
                 scaffold_2 whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: = partial 
               
               
                   
                   
                   
                   
                 (1%) 
               
               
                 BE475242 
                   Glycine   —   max _release_2 
                 497000 
                 497549 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 At3g23590/MDB19_8 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 BW611072 
                 LJGI.070108 
                 497387 
                 497795 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PU69 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_31, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence, n = 1, 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr7 
               
               
                   
                   
                   
                   
                 scaffold_31, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (10%) 
               
               
                 BQ613050 
                   Glycine   —   max _release_2 
                 497409 
                 498014 
                 ORF protein [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 CV541244 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 500143 
                 500464 
                 UniRef100_A9PGX2 
               
               
                   
                   
                   
                   
                 Putative uncharacterized 
               
               
                   
                   
                   
                   
                 protein n = 1 Tax =  Populus   
               
               
                   
                   
                   
                   
                 
                   trichocarpa 
                 
               
               
                   
                   
                   
                   
                 RepID = A9PGX2_POPTR 
               
               
                   
                   
                   
                   
                 3.00E−28 
               
               
                 CX856527 
                   Glycine   —   max _release_2 
                 501517 
                 501735 
                 NA 
               
               
                 BG839076 
                   Glycine   —   max _release_2 
                 503126 
                 505209 
                 F2P3.12 protein 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 FD790090 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 503370 
                 505191 
                 No significant hit (e−20) 
               
               
                 TC236383 
                 GMGI.071508 
                 503107 
                 505675 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_O82505 
               
               
                   
                   
                   
                   
                 Cluster: Elongation factor 
               
               
                   
                   
                   
                   
                 Ts; n = 1;  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: Elongation 
               
               
                   
                   
                   
                   
                 factor Ts -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress) = 
               
               
                   
                   
                   
                   
                 partial (32%) 
               
               
                 TA56246_3847 
                   Glycine   —   max _release_2 
                 503107 
                 505848 
                 Ethylene-responsive 
               
               
                   
                   
                   
                   
                 elongation factor EF-Ts 
               
               
                   
                   
                   
                   
                 precursor [ Lycopersicon   
               
               
                   
                   
                   
                   
                   esculentum  (Tomato)] 
               
               
                 TC239475 
                 GMGI.071508 
                 503126 
                 506560 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9SWW0 
               
               
                   
                   
                   
                   
                 Cluster: Ethylene- 
               
               
                   
                   
                   
                   
                 responsive elongation 
               
               
                   
                   
                   
                   
                 factor EF-Ts precursor; 
               
               
                   
                   
                   
                   
                 n = 1;  Solanum   
               
               
                   
                   
                   
                   
                   lycopersicum |Rep: 
               
               
                   
                   
                   
                   
                 Ethylene-responsive 
               
               
                   
                   
                   
                   
                 elongation factor EF-Ts 
               
               
                   
                   
                   
                   
                 precursor  Solanum   
               
               
                   
                   
                   
                   
                   lycopersicum  (Tomato) 
               
               
                   
                   
                   
                   
                 ( Lycopersicon   
               
               
                   
                   
                   
                   
                   esculentum ) = partial (74%) 
               
               
                 TA56245_3847 
                   Glycine   —   max _release_2 
                 505512 
                 506546 
                 Ethylene-responsive 
               
               
                   
                   
                   
                   
                 elongation factor EF-Ts 
               
               
                   
                   
                   
                   
                 precursor [ Lycopersicon   
               
               
                   
                   
                   
                   
                   esculentum  (Tomato)] 
               
               
                 BG839060 
                   Glycine   —   max _release_2 
                 505661 
                 506530 
                 At4g11120 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 CV543527 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 508539 
                 508771 
                 Eukaryotic translation 
               
               
                   
                 release_2 
                   
                   
                 initiation factor 5 
               
               
                   
                   
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 CD393454 
                   Glycine   —   max _release_2 
                 510651 
                 511000 
                 Ribosomal protein L22 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 TC245517 
                 GMGI.071508 
                 510651 
                 511270 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_O48879 
               
               
                   
                   
                   
                   
                 Cluster: Ribosomal protein 
               
               
                   
                   
                   
                   
                 L22; n = 1;  Glycine   
               
               
                   
                   
                   
                   
                   max |Rep: Ribosomal 
               
               
                   
                   
                   
                   
                 protein L22 -  Glycine max   
               
               
                   
                   
                   
                   
                 (Soybean) = partial (80%) 
               
               
                 asmbl_11866 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 510868 
                 511269 
                 NA 
               
               
                 TA51206_3847 
                   Glycine   —   max _release_2 
                 510702 
                 512712 
                 Ribosomal protein L22 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 TC249077 
                 GMGI.071508 
                 510771 
                 512771 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_O48879 
               
               
                   
                   
                   
                   
                 Cluster: Ribosomal protein 
               
               
                   
                   
                   
                   
                 L22; n = 1;  Glycine   
               
               
                   
                   
                   
                   
                   max |Rep: Ribosomal 
               
               
                   
                   
                   
                   
                 protein L22 -  Glycine max   
               
               
                   
                   
                   
                   
                 (Soybean) = partial (98%) 
               
               
                 BG316244 
                   Glycine   —   max _release_2 
                 511015 
                 512722 
                 Ribosomal protein L22 
               
               
                   
                   
                   
                   
                 [ Glycine max  (Soybean)] 
               
               
                 BQ155270 
                 MTGI.071708 
                 513084 
                 514936 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PR59 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_26, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_26, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (52%) 
               
               
                 TC30151 
                 LJGI.070108 
                 514647 
                 516395 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PR59 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_26, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_26, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (29%) 
               
               
                 BP044357 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 514647 
                 516409 
                 S-locus protein 8 [ Brassica   
               
               
                   
                 release_1 
                   
                   
                   campestris  (Field mustard)] 
               
               
                 CB540591 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 514839 
                 516355 
                 No significant hit (e−20) 
               
               
                 TA65114_3847 
                   Glycine   —   max _release_2 
                 523413 
                 524053 
                 At1g22990/F19G10_22 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC259745 
                 GMGI.071508 
                 523413 
                 524067 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7P3I8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 2; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (56%) 
               
               
                 TA4332_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 529321 
                 530051 
                 Actin-11 related cluster 
               
               
                   
                 release_1 
               
               
                 TA6031_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 529321 
                 530051 
                 Actin [ Striga asiatica ] 
               
               
                   
                 release_1 
               
               
                 TC32457 
                 LJGI.070108 
                 529321 
                 530051 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P30167 
               
               
                   
                   
                   
                   
                 Cluster: Actin-58, n = 1, 
               
               
                   
                   
                   
                   
                   Solanum tuberosum |Rep: 
               
               
                   
                   
                   
                   
                 Actin-58 -  Solanum   
               
               
                   
                   
                   
                   
                   tuberosum  (Potato), partial 
               
               
                   
                   
                   
                   
                 (39%) 
               
               
                 AW351005 
                   Glycine   —   max _release_2 
                 529380 
                 530095 
                 Actin [ Striga asiatica ] 
               
               
                 TA43521_3847 
                   Glycine   —   max _release_2 
                 529306 
                 530175 
                 Actin-11 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 asmbl_11867 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 529342 
                 530189 
                 NA 
               
               
                 AU240079 
                 LJGI.070108 
                 529747 
                 530013 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P93372 
               
               
                   
                   
                   
                   
                 Cluster: Actin-66, n = 1, 
               
               
                   
                   
                   
                   
                   Nicotiana tabacum |Rep: 
               
               
                   
                   
                   
                   
                 Actin-66 -  Nicotiana   
               
               
                   
                   
                   
                   
                   tabacum  (Common 
               
               
                   
                   
                   
                   
                 tobacco), partial (25%) 
               
               
                 AU240079 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 529747 
                 530039 
                 Actin-11 [ Arabidopsis   
               
               
                   
                 release_1 
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 EE127018 
                 
                   Arachis 
                   — 
                   hypogaea 
                   — 
                 
                 529933 
                 530285 
                 Cluster: Hypothetical 
               
               
                   
                 release_5 
                   
                   
                 protein, n = 1,  Oryza sativa   
               
               
                   
                   
                   
                   
                 (indica cultivar-group)|Rep: 
               
               
                   
                   
                   
                   
                 Hypothetical protein - 
               
               
                   
                   
                   
                   
                   Oryza sativa  subsp.  indica   
               
               
                   
                   
                   
                   
                 (Rice) 
               
               
                 TC240040 
                 GMGI.071508 
                 529306 
                 531078 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P02581 
               
               
                   
                   
                   
                   
                 Cluster: Actin-1; n = 1; 
               
               
                   
                   
                   
                   
                   Glycine max |Rep: Actin-1 - 
               
               
                   
                   
                   
                   
                   Glycine max  (Soybean) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 AW666288 
                   Glycine   —   max _release_2 
                 529980 
                 530789 
                 Actin [ Phaseolus acutifolius   
               
               
                   
                   
                   
                   
                 (Tepary bean)] 
               
               
                 TA43509_3847 
                   Glycine   —   max _release_2 
                 529888 
                 530911 
                 Actin [ Glycine max   
               
               
                   
                   
                   
                   
                 (Soybean)] 
               
               
                 TA6074_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 530031 
                 531095 
                 Actin-1 [ Sorghum  bicolor 
               
               
                   
                 release_1 
                   
                   
                 ( Sorghum ) ( Sorghum   
               
               
                   
                   
                   
                   
                   vulgare )] 
               
               
                 TC26188 
                 LJGI.070108 
                 530031 
                 531095 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A1Y2A0 
               
               
                   
                   
                   
                   
                 Cluster: Actin, n = 1, 
               
               
                   
                   
                   
                   
                 
                   Aegiceras 
                 
               
               
                   
                   
                   
                   
                   corniculatum |Rep: Actin - 
               
               
                   
                   
                   
                   
                   Aegiceras corniculatum , 
               
               
                   
                   
                   
                   
                 partial (81%) 
               
               
                 BM142797 
                   Glycine   —   max _release_2 
                 530212 
                 531095 
                 Actin [ Trifolium pratense   
               
               
                   
                   
                   
                   
                 (Red clover)] 
               
               
                 BP036880 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 530235 
                 531095 
                 Actin/actin-like [ Medicago   
               
               
                   
                 release_1 
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 AW349632 
                   Glycine   —   max _release_2 
                 533113 
                 533701 
                 NA 
               
               
                 AI900119 
                   Glycine   —   max _release_2 
                 533044 
                 534995 
                 NA 
               
               
                 TA51800_3847 
                   Glycine   —   max _release_2 
                 533054 
                 535063 
                 NA 
               
               
                 TC241826 
                 GMGI.071508 
                 533055 
                 535063 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q2Z1Y5 
               
               
                   
                   
                   
                   
                 Cluster: Pm52 protein; n = 1; 
               
               
                   
                   
                   
                   
                   Prunus mume |Rep: Pm52 
               
               
                   
                   
                   
                   
                 protein -  Prunus mume   
               
               
                   
                   
                   
                   
                 (Japanese flowering 
               
               
                   
                   
                   
                   
                 apricot) = partial (73%) 
               
               
                 BU494245 
                 LJGI.070108 
                 533191 
                 534994 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q2Z1Y5 
               
               
                   
                   
                   
                   
                 Cluster: Pm52 protein, n = 1, 
               
               
                   
                   
                   
                   
                   Prunus mume |Rep: Pm52 
               
               
                   
                   
                   
                   
                 protein -  Prunus mume   
               
               
                   
                   
                   
                   
                 (Japanese flowering 
               
               
                   
                   
                   
                   
                 apricot), partial (59%) 
               
               
                 AI440735 
                   Glycine   —   max _release_2 
                 534517 
                 535020 
                 NA 
               
               
                 AI440735 
                 GMGI.071508 
                 534522 
                 535020 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q2Z1Y5 
               
               
                   
                   
                   
                   
                 Cluster: Pm52 protein; n = 1; 
               
               
                   
                   
                   
                   
                   Prunus mume |Rep: Pm52 
               
               
                   
                   
                   
                   
                 protein -  Prunus mume   
               
               
                   
                   
                   
                   
                 (Japanese flowering 
               
               
                   
                   
                   
                   
                 apricot) = partial (41%) 
               
               
                 TC250013 
                 GMGI.071508 
                 536842 
                 537680 
                 UniRef100_Q8L7J4 
               
               
                   
                   
                   
                   
                 Cluster: Pyruvate kinase; 
               
               
                   
                   
                   
                   
                 n = 1;  Glycine max |Rep: 
               
               
                   
                   
                   
                   
                 Pyruvate kinase -  Glycine   
               
               
                   
                   
                   
                   
                   max  (Soybean) = partial 
               
               
                   
                   
                   
                   
                 (29%) 
               
               
                 TA10574_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 537149 
                 537628 
                 Pyruvate kinase [ Glycine   
               
               
                   
                 release_1 
                   
                   
                   max  (Soybean)] 
               
               
                 TC26632 
                 LJGI.070108 
                 537149 
                 537628 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q42806 
               
               
                   
                   
                   
                   
                 Cluster: Pyruvate kinase, 
               
               
                   
                   
                   
                   
                 cytosolic isozyme, n = 1, 
               
               
                   
                   
                   
                   
                   Glycine max |Rep: Pyruvate 
               
               
                   
                   
                   
                   
                 kinase, cytosolic isozyme - 
               
               
                   
                   
                   
                   
                   Glycine max  (Soybean), 
               
               
                   
                   
                   
                   
                 partial (26%) 
               
               
                 CV536725 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 537147 
                 537846 
                 Pyruvate kinase = cytosolic 
               
               
                   
                 release_2 
                   
                   
                 isozyme [ Glycine max   
               
               
                   
                   
                   
                   
                 (Soybean)] 
               
               
                 asmbl_11868 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 537127 
                 538325 
                 NA 
               
               
                 TC25282 
                 LJGI.070108 
                 537149 
                 538489 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q8L7J4 
               
               
                   
                   
                   
                   
                 Cluster: Pyruvate kinase, 
               
               
                   
                   
                   
                   
                 n = 1,  Glycine max |Rep: 
               
               
                   
                   
                   
                   
                 Pyruvate kinase -  Glycine   
               
               
                   
                   
                   
                   
                   max  (Soybean), partial 
               
               
                   
                   
                   
                   
                 (29%) 
               
               
                 TA47094_3847 
                   Glycine   —   max _release_2 
                 536842 
                 539314 
                 Pyruvate kinase [ Glycine   
               
               
                   
                   
                   
                   
                   max  (Soybean)] 
               
               
                 Pvcon4373 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 537147 
                 539113 
                 UniRef100_Q42806 
               
               
                   
                   
                   
                   
                 Pyruvate kinase, cytosolic 
               
               
                   
                   
                   
                   
                 isozyme n = 1 Tax =  Glycine   
               
               
                   
                   
                   
                   
                 
                   max 
                 
               
               
                   
                   
                   
                   
                 RepID = KPYC_SOYBN E−0 
               
               
                 TC124922 
                 MTGI.071708 
                 537491 
                 538783 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q42806 
               
               
                   
                   
                   
                   
                 Cluster: Pyruvate kinase, 
               
               
                   
                   
                   
                   
                 cytosolic isozyme, n = 1, 
               
               
                   
                   
                   
                   
                   Glycine max |Rep: Pyruvate 
               
               
                   
                   
                   
                   
                 kinase, cytosolic isozyme - 
               
               
                   
                   
                   
                   
                   Glycine max  (Soybean), 
               
               
                   
                   
                   
                   
                 partial (64%) 
               
               
                 BF598352 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 538308 
                 538971 
                 Pyruvate kinase [ Citrus   
               
               
                   
                 release_2 
                   
                   
                   sinensis  (Sweet orange)] 
               
               
                 BG044770 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 538624 
                 539149 
                 Pyruvate kinase [ Citrus   
               
               
                   
                 release_2 
                   
                   
                   sinensis  (Sweet orange)] 
               
               
                 TC249941 
                 GMGI.071508 
                 538549 
                 539314 
                 UniRef100_Q8L7J4 
               
               
                   
                   
                   
                   
                 Cluster: Pyruvate kinase; 
               
               
                   
                   
                   
                   
                 n = 1;  Glycine max |Rep: 
               
               
                   
                   
                   
                   
                 Pyruvate kinase -  Glycine   
               
               
                   
                   
                   
                   
                   max  (Soybean) = partial 
               
               
                   
                   
                   
                   
                 (37%) 
               
               
                 BE608312 
                   Glycine   —   max _release_2 
                 542536 
                 544875 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC253996 
                 GMGI.071508 
                 542045 
                 546856 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QNQ5 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (80%) 
               
               
                 TC258772 
                 GMGI.071508 
                 548268 
                 548805 
                 NA 
               
               
                 CV533614 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 548540 
                 548638 
                 No significant hit 
               
               
                 TA57756_3847 
                   Glycine   —   max _release_2 
                 548268 
                 551375 
                 Putative microtubule- 
               
               
                   
                   
                   
                   
                 severing protein subunit 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 TC239891 
                 GMGI.071508 
                 548323 
                 551375 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QNQ6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (12%) 
               
               
                 EH221990 
                 GMGI.071508 
                 550796 
                 551633 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QNQ6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (7%) 
               
               
                 EV263369 
                 GMGI.071508 
                 552842 
                 553615 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A8D2Q2 
               
               
                   
                   
                   
                   
                 Cluster: ATP synthase 
               
               
                   
                   
                   
                   
                 protein 8; n = 1;  Caranx   
               
               
                   
                   
                   
                   
                   ignobilis |Rep: ATP 
               
               
                   
                   
                   
                   
                 synthase protein 8 -  Caranx   
               
               
                   
                   
                   
                   
                   ignobilis  = partial (37%) 
               
               
                 BU964969 
                   Glycine   —   max _release_2 
                 556336 
                 556943 
                 NA 
               
               
                 BU964969 
                 GMGI.071508 
                 556494 
                 556943 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9MYM4 
               
               
                   
                   
                   
                   
                 Cluster: Lysosomal alpha- 
               
               
                   
                   
                   
                   
                 glucosidase precursor; n = 1; 
               
               
                   
                   
                   
                   
                   Bos taurus |Rep: Lysosomal 
               
               
                   
                   
                   
                   
                 alpha-glucosidase = partial 
               
               
                   
                   
                   
                   
                 (1%) 
               
               
                 EH221989 
                 GMGI.071508 
                 562783 
                 563692 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QNQ6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (3%) 
               
               
                 AW831441 
                 GMGI.071508 
                 573069 
                 573567 
                 NA 
               
               
                 AW831441 
                   Glycine   —   max _release_2 
                 573069 
                 573639 
                 NA 
               
               
                 TA6761_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 573706 
                 580487 
                 Sphingosine kinase [ Lotus   
               
               
                   
                 release_1 
                   
                   
                   japonicus ] 
               
               
                 TC20288 
                 LJGI.070108 
                 573706 
                 580487 
                 UniRef100_Q5KR50 
               
               
                   
                   
                   
                   
                 Cluster: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase, n = 1,  Lotus   
               
               
                   
                   
                   
                   
                   japonicus |Rep: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase -  Lotus japonicus , 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 TC122322 
                 MTGI.071708 
                 574490 
                 580620 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q5KR50 
               
               
                   
                   
                   
                   
                 Cluster: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase, n = 1,  Lotus   
               
               
                   
                   
                   
                   
                   japonicus |Rep: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase -  Lotus japonicus , 
               
               
                   
                   
                   
                   
                 partial (66%) 
               
               
                 BI701010 
                   Glycine   —   max _release_2 
                 577145 
                 579375 
                 Sphingosine kinase [ Lotus   
               
               
                   
                   
                   
                   
                   japonicus ] 
               
               
                 Pvcon3123 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 577107 
                 580468 
                 UniRef100_Q5KR50 
               
               
                   
                   
                   
                   
                 Sphingosine kinase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Lotus japonicus   
               
               
                   
                   
                   
                   
                 RepID = Q5KR50_LOTJA 
               
               
                   
                   
                   
                   
                 E−0 
               
               
                 TA49258_3847 
                   Glycine   —   max _release_2 
                 579511 
                 580791 
                 Sphingosine kinase [ Lotus   
               
               
                   
                   
                   
                   
                   japonicus ] 
               
               
                 TC235674 
                 GMGI.071508 
                 579511 
                 580791 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q5KR50 
               
               
                   
                   
                   
                   
                 Cluster: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase; n = 1;  Lotus   
               
               
                   
                   
                   
                   
                   japonicus |Rep: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase -  Lotus japonicus  = 
               
               
                   
                   
                   
                   
                 partial (26%) 
               
               
                 BI969866 
                   Glycine   —   max _release_2 
                 579600 
                 580756 
                 Sphingosine kinase [ Lotus   
               
               
                   
                   
                   
                   
                   japonicus ] 
               
               
                 EH043869 
                 
                   Arachis 
                   — 
                   stenosperma 
                   — 
                 
                 579729 
                 580660 
                 Cluster: Sphingosine 
               
               
                   
                 release_5 
                   
                   
                 kinase, n = 1,  Lotus   
               
               
                   
                   
                   
                   
                   japonicus |Rep: Sphingosine 
               
               
                   
                   
                   
                   
                 kinase -  Lotus japonicus   
               
               
                 BQ786742 
                   Glycine   —   max _release_2 
                 580594 
                 580719 
                 NA 
               
               
                 BM108235 
                   Glycine   —   max _release_2 
                 581688 
                 582006 
                 NA 
               
               
                 AW508189 
                   Glycine   —   max _release_2 
                 581725 
                 582244 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC238711 
                 GMGI.071508 
                 581688 
                 582562 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QNQ7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (50%) 
               
               
                 TA46155_3847 
                   Glycine   —   max _release_2 
                 581745 
                 582556 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 AW278369 
                 GMGI.071508 
                 581988 
                 582389 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7QNQ7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome undetermined 
               
               
                   
                   
                   
                   
                 scaffold_133 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (44%) 
               
               
                 AW278369 
                   Glycine   —   max _release_2 
                 581988 
                 582418 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CD394810 
                   Glycine   —   max _release_2 
                 582134 
                 582328 
                 NA 
               
               
                 BG047332 
                   Glycine   —   max _release_2 
                 591288 
                 592013 
                 OSJNBb0065L13.3 protein 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 TC272805 
                 GMGI.071508 
                 591358 
                 592013 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7NXM8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr5 
               
               
                   
                   
                   
                   
                 scaffold_2 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr5 
               
               
                   
                   
                   
                   
                 scaffold_2 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (15%) 
               
               
                 BW599171 
                 LJGI.070108 
                 593399 
                 593875 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PT63 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr8 
               
               
                   
                   
                   
                   
                 scaffold_29, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence, n = 1, 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr8 
               
               
                   
                   
                   
                   
                 scaffold_29, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (24%) 
               
               
                 BE057829 
                   Glycine   —   max _release_2 
                 606858 
                 607008 
                 NA 
               
               
                 TC275159 
                 GMGI.071508 
                 606858 
                 607456 
                 NA 
               
               
                 BE612118 
                 GMGI.071508 
                 615853 
                 616253 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7GPV4 
               
               
                   
                   
                   
                   
                 Cluster: Citrate transporter; 
               
               
                   
                   
                   
                   
                 n = 1;  Bacillus cereus  subsp. 
               
               
                   
                   
                   
                   
                 cytotoxis NVH 391-98|Rep: 
               
               
                   
                   
                   
                   
                 Citrate transporter - 
               
               
                   
                   
                   
                   
                   Bacillus cereus  subsp. 
               
               
                   
                   
                   
                   
                 cytotoxis (strain NVH 391- 
               
               
                   
                   
                   
                   
                 98) = partial (5%) 
               
               
                 BE612118 
                   Glycine   —   max _release_2 
                 615869 
                 616269 
                 NA 
               
               
                 CA910895 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 622174 
                 622531 
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                 release_2 
                   
                   
                 genomic DNA, 
               
               
                   
                   
                   
                   
                 chromosome 5, P1 
               
               
                   
                   
                   
                   
                 clone: MPO12 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 BU763992 
                   Glycine   —   max _release_2 
                 625192 
                 625591 
                 NA 
               
               
                 TA51978_3847 
                   Glycine   —   max _release_2 
                 625330 
                 626304 
                 Putative ethylene- 
               
               
                   
                   
                   
                   
                 responsive protein [ Oryza   
               
               
                   
                   
                   
                   
                   sativa  ( japonica  cultivar- 
               
               
                   
                   
                   
                   
                 group)] 
               
               
                 TC236117 
                 GMGI.071508 
                 625330 
                 626304 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM86 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (43%) 
               
               
                 TC263881 
                 GMGI.071508 
                 625192 
                 627651 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM86 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (76%) 
               
               
                 TA51979_3847 
                   Glycine   —   max _release_2 
                 625252 
                 627642 
                 Putative ethylene response 
               
               
                   
                   
                   
                   
                 protein [ Capsicum chinense   
               
               
                   
                   
                   
                   
                 (Scotch bonnet) (Bonnet 
               
               
                   
                   
                   
                   
                 pepper)] 
               
               
                 TC236300 
                 GMGI.071508 
                 625318 
                 627642 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM86 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (98%) 
               
               
                 CA910548 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 625559 
                 627607 
                 Putative ethylene response 
               
               
                   
                 release_2 
                   
                   
                 protein [ Capsicum chinense   
               
               
                   
                   
                   
                   
                 (Scotch bonnet) (Bonnet 
               
               
                   
                   
                   
                   
                 pepper)] 
               
               
                 Pvcon5808 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 625567 
                 627610 
                 UniRef100_A7PM86 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PM86_VITVI 
               
               
                   
                   
                   
                   
                 2.00E−77 
               
               
                 EV269595 
                 GMGI.071508 
                 627204 
                 627569 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM86 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (29%) 
               
               
                 BI273677 
                   Glycine   —   max _release_2 
                 637550 
                 637816 
                 NA 
               
               
                 BP049107 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 647584 
                 649419 
                 Cinnamoyl CoA reductase- 
               
               
                   
                 release_1 
                   
                   
                 like protein related cluster 
               
               
                 TC258382 
                 GMGI.071508 
                 646415 
                 652371 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM88 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (72%) 
               
               
                 TA50222_3847 
                   Glycine   —   max _release_2 
                 646722 
                 652222 
                 Cinnamoyl CoA reductase- 
               
               
                   
                   
                   
                   
                 like protein [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 SATT495 
                   
                 650288 
                 650531 
               
               
                 Satt495 
                 ePCR 
                 650288 
                 650531 
                 Map3.0 SSR L/Gm19 cM: 
               
               
                   
                   
                   
                   
                 2.7 
               
               
                 AW099618 
                 GMGI.071508 
                 649276 
                 652222 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM88 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (23%) 
               
               
                 TA50296_3847 
                   Glycine   —   max _release_2 
                 674409 
                 676421 
                 NA 
               
               
                 BQ629031 
                   Glycine   —   max _release_2 
                 674669 
                 676494 
                 NA 
               
               
                 BM520842 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 674685 
                 676538 
                 NA 
               
               
                   
                 release_2 
               
               
                 TC264557 
                 GMGI.071508 
                 674741 
                 676494 
                 NA 
               
               
                 BU765059 
                   Glycine   —   max _release_2 
                 674828 
                 676698 
                 NA 
               
               
                 BU765059 
                 GMGI.071508 
                 674925 
                 676698 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7L4B0 
               
               
                   
                   
                   
                   
                 Cluster: Protein kinase; 
               
               
                   
                   
                   
                   
                 n = 1;  Carica papaya |Rep: 
               
               
                   
                   
                   
                   
                 Protein kinase  Carica   
               
               
                   
                   
                   
                   
                   papaya  ( Papaya ) = partial 
               
               
                   
                   
                   
                   
                 (6%) 
               
               
                 TC264815 
                 GMGI.071508 
                 674409 
                 678111 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7L4B0 
               
               
                   
                   
                   
                   
                 Cluster: Protein kinase; 
               
               
                   
                   
                   
                   
                 n = 1;  Carica papaya |Rep: 
               
               
                   
                   
                   
                   
                 Protein kinase -  Carica   
               
               
                   
                   
                   
                   
                   papaya  ( Papaya ) = partial 
               
               
                   
                   
                   
                   
                 (14%) 
               
               
                 asmbl_11869 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 676473 
                 676672 
                 NA 
               
               
                 TA50295_3847 
                   Glycine   —   max _release_2 
                 674775 
                 678957 
                 NA 
               
               
                 Pvcon1987 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 674506 
                 679702 
                 UniRef100_A7L4B0 
               
               
                   
                   
                   
                   
                 Protein kinase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Carica papaya   
               
               
                   
                   
                   
                   
                 RepID = A7L4B0_CARPA 
               
               
                   
                   
                   
                   
                 1.00E−127 
               
               
                 BM528477 
                   Glycine   —   max _release_2 
                 676507 
                 678111 
                 NA 
               
               
                 TA11531_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 676692 
                 678714 
                 Protein kinase-like protein 
               
               
                   
                 release_1 
                   
                   
                 related cluster 
               
               
                 TA13031_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 676692 
                 678714 
                 Hypothetical protein 
               
               
                   
                 release_1 
                   
                   
                 At5g14720 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC31122 
                 LJGI.070108 
                 676701 
                 678714 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7L4B0 
               
               
                   
                   
                   
                   
                 Cluster: Protein kinase, 
               
               
                   
                   
                   
                   
                 n = 1,  Carica papaya |Rep: 
               
               
                   
                   
                   
                   
                 Protein kinase -  Carica   
               
               
                   
                   
                   
                   
                   papaya  ( Papaya ), partial 
               
               
                   
                   
                   
                   
                 (14%) 
               
               
                 TC255388 
                 GMGI.071508 
                 679127 
                 681361 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM90 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (44%) 
               
               
                 TC124284 
                 MTGI.071708 
                 679117 
                 681419 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM90 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (48%) 
               
               
                 DV565290 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 681368 
                 681460 
                 No significant hit (e−20) 
               
               
                 toGm05 
                 DAGchainer 
                 603011 
                 803108 
                 Ks0.2166 
               
               
                 NP7265365 
                 MTGI.071708 
                 703588 
                 713159 
                 GB|AC124951.19|ABE84834.1 
               
               
                   
                   
                   
                   
                 ATPase, E1-E2 type, 
               
               
                   
                   
                   
                   
                 Peptidase M, neutral zinc 
               
               
                   
                   
                   
                   
                 metallopeptidases, zinc- 
               
               
                   
                   
                   
                   
                 binding site 
               
               
                 BF325038 
                   Glycine   —   max _release_2 
                 711165 
                 712911 
                 ATPase = E1-E2 type; 
               
               
                   
                   
                   
                   
                 Peptidase M = neutral zinc 
               
               
                   
                   
                   
                   
                 metallopeptidases = zinc- 
               
               
                   
                   
                   
                   
                 binding site [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 FE897117 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 715539 
                 715874 
                 UniRef100_Q93VL6 NBS- 
               
               
                   
                   
                   
                   
                 LRR resistance-like protein 
               
               
                   
                   
                   
                   
                 J78 n = 1 Tax =  Phaseolus   
               
               
                   
                   
                   
                   
                 
                   vulgaris 
                 
               
               
                   
                   
                   
                   
                 RepID = Q93VL6_PHAVU 
               
               
                   
                   
                   
                   
                 2.00E−47 
               
               
                 TC264844 
                 GMGI.071508 
                 731939 
                 732440 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PD05 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr17 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr17 
               
               
                   
                   
                   
                   
                 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (13%) 
               
               
                 TA67235_3847 
                   Glycine   —   max _release_2 
                 731939 
                 733078 
                 NA 
               
               
                 CD404253 
                 GMGI.071508 
                 732439 
                 733078 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM92 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (8%) 
               
               
                 BU091162 
                 GMGI.071508 
                 737876 
                 738292 
                 NA 
               
               
                 BU091162 
                   Glycine   —   max _release_2 
                 737876 
                 738363 
                 NA 
               
               
                 asmbl_11870 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 740144 
                 741401 
                 NA 
               
               
                 BI470779 
                 GMGI.071508 
                 740189 
                 741746 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ) = 
               
               
                   
                   
                   
                   
                 partial (30%) 
               
               
                 TA43150_3847 
                   Glycine   —   max _release_2 
                 740126 
                 742524 
                 Carbonic anhydrase 
               
               
                   
                   
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 BG509786 
                 GMGI.071508 
                 740265 
                 742434 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ) = 
               
               
                   
                   
                   
                   
                 partial (34%) 
               
               
                 BG509786 
                   Glycine   —   max _release_2 
                 740265 
                 742656 
                 Carbonic anhydrase [ Zea   
               
               
                   
                   
                   
                   
                   mays  (Maize)] 
               
               
                 DT083317 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 740299 
                 742670 
                 Carbonic anhydrase [ Zea   
               
               
                   
                 release_2 
                   
                   
                   mays  (Maize)] 
               
               
                 AW781596 
                   Glycine   —   max _release_2 
                 740182 
                 742860 
                 Carbonic anhydrase 
               
               
                   
                   
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 BU089680 
                   Glycine   —   max _release_2 
                 741070 
                 742671 
                 Carbonic anhydrase [ Zea   
               
               
                   
                   
                   
                   
                   mays  (Maize)] 
               
               
                 BM887226 
                   Glycine   —   max _release_2 
                 741037 
                 742852 
                 Carbonic anhydrase [ Zea   
               
               
                   
                   
                   
                   
                   mays  (Maize)] 
               
               
                 BU089600 
                   Glycine   —   max _release_2 
                 741070 
                 742891 
                 Carbonic anhydrase [ Zea   
               
               
                   
                   
                   
                   
                   mays  (Maize)] 
               
               
                 TC23104 
                 LJGI.070108 
                 740127 
                 744319 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, n = 1,  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ), 
               
               
                   
                   
                   
                   
                 partial (98%) 
               
               
                 TA2934_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 739932 
                 744687 
                 Carbonic anhydrase [ Zea   
               
               
                   
                 release_2 
                   
                   
                   mays  (Maize)] 
               
               
                 TC238511 
                 GMGI.071508 
                 740118 
                 744639 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 TA377_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 740127 
                 744704 
                 Carbonic anhydrase [ Zea   
               
               
                   
                 release_1 
                   
                   
                   mays  (Maize)] 
               
               
                 Pvcon229 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 740125 
                 744728 
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vigna radiata  var. 
               
               
                   
                   
                   
                   
                 
                   radiata 
                 
               
               
                   
                   
                   
                   
                 RepID = Q9XQB0_PHAAU 
               
               
                   
                   
                   
                   
                 1.00E−176 
               
               
                 TA2935_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 740178 
                 744687 
                 Carbonic anhydrase [ Zea   
               
               
                   
                 release_2 
                   
                   
                   mays  (Maize)] 
               
               
                 TA2376_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 740118 
                 744805 
                 Carbonic anhydrase 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 TA43157_3847 
                   Glycine   —   max _release_2 
                 740117 
                 744844 
                 Carbonic anhydrase [ Zea   
               
               
                   
                   
                   
                   
                   mays  (Maize)] 
               
               
                 TA43160_3847 
                   Glycine   —   max _release_2 
                 741051 
                 744186 
                 Carbonic anhydrase = 
               
               
                   
                   
                   
                   
                 chloroplast precursor (EC 
               
               
                   
                   
                   
                   
                 4.2.1.1) (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase = 27 
               
               
                   
                   
                   
                   
                 kDa isoform; Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase = 25 kDa 
               
               
                   
                   
                   
                   
                 isoform] [ Pisum sativum   
               
               
                   
                   
                   
                   
                 (Garden pea)] 
               
               
                 TC135779 
                 MTGI.071708 
                 741364 
                 744530 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P17067 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa 
               
               
                   
                   
                   
                   
                 isoform], n = 1,  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa isoform] - 
               
               
                   
                   
                   
                   
                   Pisum sativum  (Garden 
               
               
                   
                   
                   
                   
                 pea), partial (79%) 
               
               
                 TA4174_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 742624 
                 743398 
                 Carbonic anhydrase 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 Pvcon228 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 741374 
                 744687 
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vigna radiata  var. 
               
               
                   
                   
                   
                   
                 
                   radiata 
                 
               
               
                   
                   
                   
                   
                 RepID = Q9XQB0_PHAAU 
               
               
                   
                   
                   
                   
                 1.00E−137 
               
               
                 TA43163_3847 
                   Glycine   —   max _release_2 
                 741381 
                 744770 
                 Carbonic anhydrase [ Zea   
               
               
                   
                   
                   
                   
                   mays  (Maize)] 
               
               
                 TC247359 
                 GMGI.071508 
                 741381 
                 744770 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ) = 
               
               
                   
                   
                   
                   
                 partial (62%) 
               
               
                 BG045644 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 742643 
                 743622 
                 Carbonic anhydrase = 
               
               
                   
                 release_2 
                   
                   
                 chloroplast precursor (EC 
               
               
                   
                   
                   
                   
                 4.2.1.1) (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase = 27 
               
               
                   
                   
                   
                   
                 kDa isoform; Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase = 25 kDa 
               
               
                   
                   
                   
                   
                 isoform] [ Pisum sativum   
               
               
                   
                   
                   
                   
                 (Garden pea)] 
               
               
                 Pvcon227 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 741681 
                 744687 
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vigna radiata  var. 
               
               
                   
                   
                   
                   
                 
                   radiata 
                 
               
               
                   
                   
                   
                   
                 RepID = Q9XQB0_PHAAU 
               
               
                   
                   
                   
                   
                 1.00E−133 
               
               
                 TC124201 
                 MTGI.071708 
                 741922 
                 744665 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P17067 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa 
               
               
                   
                   
                   
                   
                 isoform], n = 1,  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa isoform] - 
               
               
                   
                   
                   
                   
                   Pisum sativum  (Garden 
               
               
                   
                   
                   
                   
                 pea), partial (57%) 
               
               
                 CB543710 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 742464 
                 744532 
                 Carbonic anhydrase 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 CB539509 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 742480 
                 744557 
                 Carbonic anhydrase [ Zea   
               
               
                   
                 release_2 
                   
                   
                   mays  (Maize)] 
               
               
                 TC126947 
                 MTGI.071708 
                 742434 
                 744665 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_P17067 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa 
               
               
                   
                   
                   
                   
                 isoform], n = 1,  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa isoform] - 
               
               
                   
                   
                   
                   
                   Pisum sativum  (Garden 
               
               
                   
                   
                   
                   
                 pea), partial (51%) 
               
               
                 asmbl_11871 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 742823 
                 744369 
                 NA 
               
               
                 asmbl_11872 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 742628 
                 744687 
                 NA 
               
               
                 asmbl_11874 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 742641 
                 744687 
                 NA 
               
               
                 TA43165_3847 
                   Glycine   —   max _release_2 
                 742658 
                 744772 
                 Carbonic anhydrase 
               
               
                   
                   
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 TC241035 
                 GMGI.071508 
                 742658 
                 744772 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ) = 
               
               
                   
                   
                   
                   
                 partial (38%) 
               
               
                 TA480_3888 
                 
                   Pisum 
                   — 
                   sativum 
                   — 
                 
                 742823 
                 744641 
                 Carbonic anhydrase, 
               
               
                   
                 release_2 
                   
                   
                 chloroplast precursor (EC 
               
               
                   
                   
                   
                   
                 4.2.1.1) (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase, 27 
               
               
                   
                   
                   
                   
                 kDa isoform, Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, 25 kDa isoform] 
               
               
                   
                   
                   
                   
                 [ Pisum sativum  (Garden 
               
               
                   
                   
                   
                   
                 pea)] 
               
               
                 TC240357 
                 GMGI.071508 
                 742650 
                 744828 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ) = 
               
               
                   
                   
                   
                   
                 partial (38%) 
               
               
                 BE346766 
                   Glycine   —   max _release_2 
                 743636 
                 744227 
                 Carbonic anhydrase = 
               
               
                   
                   
                   
                   
                 chloroplast precursor (EC 
               
               
                   
                   
                   
                   
                 4.2.1.1) (Carbonate 
               
               
                   
                   
                   
                   
                 dehydratase) [Contains: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase = 27 
               
               
                   
                   
                   
                   
                 kDa isoform; Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase = 25 kDa 
               
               
                   
                   
                   
                   
                 isoform] [ Pisum sativum   
               
               
                   
                   
                   
                   
                 (Garden pea)] 
               
               
                 AW596246 
                   Glycine   —   max _release_2 
                 743636 
                 744243 
                 Carbonic anhydrase 
               
               
                   
                   
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 BE807206 
                   Glycine   —   max _release_2 
                 743636 
                 744244 
                 Carbonic anhydrase 
               
               
                   
                   
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 CB280659 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 743613 
                 744419 
                 Carbonic anhydrase 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 asmbl_11875 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 743587 
                 744642 
                 NA 
               
               
                 DT083076 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 743565 
                 744678 
                 Carbonic anhydrase 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 TC29040 
                 LJGI.070108 
                 743565 
                 744702 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, n = 1,  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ), 
               
               
                   
                   
                   
                   
                 partial (31%) 
               
               
                 TA134_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 743568 
                 744704 
                 Carbonic anhydrase related 
               
               
                   
                 release_1 
                   
                   
                 cluster 
               
               
                 TA378_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 743568 
                 744704 
                 Carbonic anhydrase, 
               
               
                   
                 release_1 
                   
                   
                 prokaryotic and plant 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TC24201 
                 LJGI.070108 
                 743584 
                 744704 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9XQB0 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, n = 1,  Vigna   
               
               
                   
                   
                   
                   
                   radiata  var.  radiata |Rep: 
               
               
                   
                   
                   
                   
                 Carbonic anhydrase - 
               
               
                   
                   
                   
                   
                   Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata ), 
               
               
                   
                   
                   
                   
                 partial (25%) 
               
               
                 CB539196 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 743626 
                 744687 
                 Carbonic anhydrase 
               
               
                   
                 release_2 
                   
                   
                 [ Phaseolus aureus  (Mung 
               
               
                   
                   
                   
                   
                 bean) ( Vigna radiata )] 
               
               
                 AV413187 
                 LJGI.070108 
                 744089 
                 744647 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_P27140 
               
               
                   
                   
                   
                   
                 Cluster: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor, n = 4,  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: Carbonic 
               
               
                   
                   
                   
                   
                 anhydrase, chloroplast 
               
               
                   
                   
                   
                   
                 precursor -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress), 
               
               
                   
                   
                   
                   
                 partial (17%) 
               
               
                 AV413187 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 744089 
                 744672 
                 Carbonic anhydrase, 
               
               
                   
                 release_1 
                   
                   
                 chloroplast precursor 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CD860850 
                 
                   Pisum 
                   — 
                   sativum 
                   — 
                 
                 744145 
                 744641 
                 Carbonic anhydrase, 
               
               
                   
                 release_2 
                   
                   
                 chloroplast precursor 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CD403834 
                   Glycine   —   max _release_2 
                 744076 
                 744732 
                 Carbonic anhydrase = 
               
               
                   
                   
                   
                   
                 chloroplast precursor 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 CD415400 
                   Glycine   —   max _release_2 
                 744251 
                 744691 
                 NA 
               
               
                 asmbl_11873 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 744448 
                 744649 
                 NA 
               
               
                 CB541850 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 747218 
                 747570 
                 No significant hit (e−20) 
               
               
                 BM953717 
                   Glycine   —   max _release_2 
                 747199 
                 748912 
                 Peptidase S1 and S6 = 
               
               
                   
                   
                   
                   
                 chymotrypsin/Hap 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 EH256926 
                 GMGI.071508 
                 747192 
                 749279 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q7E6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr18 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr18 
               
               
                   
                   
                   
                   
                 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (21%) 
               
               
                 TA51716_3847 
                   Glycine   —   max _release_2 
                 747191 
                 749327 
                 Putative DegP protease 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 TC243148 
                 GMGI.071508 
                 747199 
                 749327 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q7E6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr18 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr18 
               
               
                   
                   
                   
                   
                 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (25%) 
               
               
                 AV768772 
                 LJGI.070108 
                 747281 
                 749288 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_O22609 
               
               
                   
                   
                   
                   
                 Cluster: Protease Do-like 1, 
               
               
                   
                   
                   
                   
                 chloroplast precursor, n = 1, 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Protease Do-like 1, 
               
               
                   
                   
                   
                   
                 chloroplast precursor - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress), partial 
               
               
                   
                   
                   
                   
                 (23%) 
               
               
                 BE807421 
                   Glycine   —   max _release_2 
                 748776 
                 749688 
                 Peptidase S1 and S6 = 
               
               
                   
                   
                   
                   
                 chymotrypsin/Hap 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TA51715_3847 
                   Glycine   —   max _release_2 
                 747251 
                 752927 
                 Peptidase S1 and S6 = 
               
               
                   
                   
                   
                   
                 chymotrypsin/Hap 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TC260884 
                 GMGI.071508 
                 747251 
                 752942 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q7E6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr18 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr18 
               
               
                   
                   
                   
                   
                 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (80%) 
               
               
                 BE474482 
                   Glycine   —   max _release_2 
                 751068 
                 752387 
                 Peptidase S1 and S6 = 
               
               
                   
                   
                   
                   
                 chymotrypsin/Hap 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BE474482 
                 GMGI.071508 
                 751070 
                 752387 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q7E6 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr18 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr18 
               
               
                   
                   
                   
                   
                 scaffold_59 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (19%) 
               
               
                 TC261290 
                 GMGI.071508 
                 755656 
                 757218 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM96 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (33%) 
               
               
                 BG646067 
                 MTGI.071708 
                 756996 
                 759297 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM96 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (33%) 
               
               
                 BE555567 
                   Glycine   —   max _release_2 
                 757210 
                 762134 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BE555567 
                 GMGI.071508 
                 757746 
                 762134 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM96 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (31%) 
               
               
                 BE058948 
                   Glycine   —   max _release_2 
                 762117 
                 763784 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BE058948 
                 GMGI.071508 
                 762818 
                 763784 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PM96 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (25%) 
               
               
                 TC138874 
                 MTGI.071708 
                 768876 
                 770881 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q40318 
               
               
                   
                   
                   
                   
                 Cluster: Coil protein, n = 1, 
               
               
                   
                   
                   
                   
                   Medicago sativa |Rep: Coil 
               
               
                   
                   
                   
                   
                 protein -  Medicago sativa   
               
               
                   
                   
                   
                   
                 (Alfalfa), partial (60%) 
               
               
                 TC124470 
                 MTGI.071708 
                 768770 
                 771318 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q1RU40 
               
               
                   
                   
                   
                   
                 Cluster: Lipolytic enzyme, 
               
               
                   
                   
                   
                   
                 G-D-S-L, n = 1,  Medicago   
               
               
                   
                   
                   
                   
                   truncatula |Rep: Lipolytic 
               
               
                   
                   
                   
                   
                 enzyme, G-D-S-L - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic), partial 
               
               
                   
                   
                   
                   
                 (77%) 
               
               
                 TC268582 
                 GMGI.071508 
                 768733 
                 771727 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMA0 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (89%) 
               
               
                 BE059369 
                   Glycine   —   max _release_2 
                 770328 
                 771326 
                 Lipolytic enzyme = G-D-S-L 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 BE329784 
                 GMGI.071508 
                 770783 
                 771236 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q1RU40 
               
               
                   
                   
                   
                   
                 Cluster: Lipolytic enzyme = 
               
               
                   
                   
                   
                   
                 G-D-S-L; n = 1;  Medicago   
               
               
                   
                   
                   
                   
                   truncatula |Rep: Lipolytic 
               
               
                   
                   
                   
                   
                 enzyme = G-D-S-L - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic) = partial 
               
               
                   
                   
                   
                   
                 (27%) 
               
               
                 BE329784 
                   Glycine   —   max _release_2 
                 770783 
                 771288 
                 Lipolytic enzyme = G-D-S- 
               
               
                   
                   
                   
                   
                 L [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 TA68573_3847 
                   Glycine   —   max _release_2 
                 773983 
                 774836 
                 Putative kinesin light chain 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 TC259227 
                 GMGI.071508 
                 773983 
                 774836 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PD12 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr17 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr17 
               
               
                   
                   
                   
                   
                 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (13%) 
               
               
                 AI759741 
                   Glycine   —   max _release_2 
                 774118 
                 774822 
                 Putative kinesin light chain 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 asmbl_11876 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 774030 
                 774978 
                 NA 
               
               
                 TC139308 
                 MTGI.071708 
                 774935 
                 775598 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMA1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (34%) 
               
               
                 AW186182 
                   Glycine   —   max _release_2 
                 775276 
                 775796 
                 Similarity to kinesin light 
               
               
                   
                   
                   
                   
                 chain [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 AW186182 
                 GMGI.071508 
                 775464 
                 775796 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PD12 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr17 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr17 
               
               
                   
                   
                   
                   
                 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (16%) 
               
               
                 BF010272 
                 GMGI.071508 
                 783671 
                 784035 
                 UniRef100_Q00K67 
               
               
                   
                   
                   
                   
                 Cluster: Major surface 
               
               
                   
                   
                   
                   
                 antigen; n = 1; Hepatitis B 
               
               
                   
                   
                   
                   
                 virus|Rep: Major surface 
               
               
                   
                   
                   
                   
                 antigen - Hepatitis B virus 
               
               
                   
                   
                   
                   
                 (HBV) = partial (5%) 
               
               
                 TA54422_3847 
                   Glycine   —   max _release_2 
                 783644 
                 784982 
                 Alcohol dehydrogenase 
               
               
                   
                   
                   
                   
                 superfamily = zinc- 
               
               
                   
                   
                   
                   
                 containing [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 BI971258 
                   Glycine   —   max _release_2 
                 783921 
                 784926 
                 Auxin-induced protein 
               
               
                   
                   
                   
                   
                 [ Vigna radiata ] 
               
               
                 CV542673 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 {grave over ( )}{grave over ( )} 
                 785346 
                 Quinone oxidoreductase- 
               
               
                   
                 release_2 
                   
                   
                 like protein [ Helianthus   
               
               
                   
                   
                   
                   
                   annuus  (Common 
               
               
                   
                   
                   
                   
                 sunflower)] 
               
               
                 TC239445 
                 GMGI.071508 
                 783904 
                 786356 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_O23939 
               
               
                   
                   
                   
                   
                 Cluster: Ripening-induced 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Fragaria   
               
               
                   
                   
                   
                   
                   vesca |Rep: Ripening- 
               
               
                   
                   
                   
                   
                 induced protein -  Fragaria   
               
               
                   
                   
                   
                   
                   vesca  (Woodland 
               
               
                   
                   
                   
                   
                 strawberry) = partial (84%) 
               
               
                 TA3037_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 784204 
                 786191 
                 Quinone oxidoreductase- 
               
               
                   
                 release_2 
                   
                   
                 like protein [ Helianthus   
               
               
                   
                   
                   
                   
                   annuus  (Common 
               
               
                   
                   
                   
                   
                 sunflower)] 
               
               
                 BG045149 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 784943 
                 785469 
                 Quinone oxidoreductase 
               
               
                   
                 release_2 
                   
                   
                 [ Fragaria ananassa   
               
               
                   
                   
                   
                   
                 (Strawberry)] 
               
               
                 TA54423_3847 
                   Glycine   —   max _release_2 
                 784420 
                 786354 
                 Quinone oxidoreductase- 
               
               
                   
                   
                   
                   
                 like protein [ Helianthus   
               
               
                   
                   
                   
                   
                   annuus  (Common 
               
               
                   
                   
                   
                   
                 sunflower)] 
               
               
                 BG046280 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 786163 
                 786344 
                 NA 
               
               
                   
                 release_2 
               
               
                 CA901808 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 800890 
                 801759 
                 Alcohol dehydrogenase 
               
               
                   
                 release_2 
                   
                   
                 superfamily, zinc- 
               
               
                   
                   
                   
                   
                 containing [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TA14086_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 800932 
                 801745 
                 Alcohol dehydrogenase 
               
               
                   
                 release_1 
                   
                   
                 superfamily, zinc- 
               
               
                   
                   
                   
                   
                 containing [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TC23841 
                 LJGI.070108 
                 800932 
                 801745 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q43677 
               
               
                   
                   
                   
                   
                 Cluster: Auxin-induced 
               
               
                   
                   
                   
                   
                 protein, n = 1,  Vigna   
               
               
                   
                   
                   
                   
                   radiata |Rep: Auxin-induced 
               
               
                   
                   
                   
                   
                 protein -  Vigna radiata , 
               
               
                   
                   
                   
                   
                 partial (40%) 
               
               
                 M0093116 
                 SEQ. Listing 
                 805373 
                 805788 
                 SEQ ID NO: 13 
               
               
                 TC252650 
                 GMGI.071508 
                 805357 
                 806601 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q43677 
               
               
                   
                   
                   
                   
                 Cluster: Auxin-induced 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata |Rep: Auxin-induced 
               
               
                   
                   
                   
                   
                 protein -  Vigna radiata  = 
               
               
                   
                   
                   
                   
                 partial (54%) 
               
               
                 BARC-039375-07304 
                 ePCR&amp;blat 
                 805660 
                 806532 
                 Map3.0 SNP L/Gm19 cM: 
               
               
                   
                   
                   
                   
                 3.4 
               
               
                 TA65006_3847 
                   Glycine   —   max _release_2 
                 805357 
                 807089 
                 Quinone oxidoreductase- 
               
               
                   
                   
                   
                   
                 like protein [ Helianthus   
               
               
                   
                   
                   
                   
                   annuus  (Common 
               
               
                   
                   
                   
                   
                 sunflower)] 
               
               
                 TA65005_3847 
                   Glycine   —   max _release_2 
                 806611 
                 807310 
                 Alcohol dehydrogenase 
               
               
                   
                   
                   
                   
                 superfamily = zinc- 
               
               
                   
                   
                   
                   
                 containing [ Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic)] 
               
               
                 TC274718 
                 GMGI.071508 
                 806611 
                 807310 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q43677 
               
               
                   
                   
                   
                   
                 Cluster: Auxin-induced 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Vigna   
               
               
                   
                   
                   
                   
                   radiata |Rep: Auxin-induced 
               
               
                   
                   
                   
                   
                 protein -  Vigna radiata  = 
               
               
                   
                   
                   
                   
                 partial (30%) 
               
               
                 AW397551 
                   Glycine   —   max _release_2 
                 811245 
                 811796 
                 Auxin-induced protein 
               
               
                   
                   
                   
                   
                 [ Vigna radiata ] 
               
               
                 Pvcon4580 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 811330 
                 813524 
                 UniRef100_Q43677 Auxin- 
               
               
                   
                   
                   
                   
                 induced protein n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vigna radiata   
               
               
                   
                   
                   
                   
                 RepID = Q43677_9FABA 
               
               
                   
                   
                   
                   
                 1.00E−133 
               
               
                 asmbl_11877 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 812523 
                 812779 
                 NA 
               
               
                 BE608172 
                   Glycine   —   max _release_2 
                 821487 
                 822389 
                 Protein farnesyltransferase 
               
               
                   
                   
                   
                   
                 subunit beta [ Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea)] 
               
               
                 BQ273477 
                   Glycine   —   max _release_2 
                 821559 
                 822383 
                 NA 
               
               
                 TC246895 
                 GMGI.071508 
                 821516 
                 822443 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q04903 
               
               
                   
                   
                   
                   
                 Cluster: Protein 
               
               
                   
                   
                   
                   
                 farnesyltransferase subunit 
               
               
                   
                   
                   
                   
                 beta; n = 1;  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Protein 
               
               
                   
                   
                   
                   
                 farnesyltransferase subunit 
               
               
                   
                   
                   
                   
                 beta -  Pisum sativum   
               
               
                   
                   
                   
                   
                 (Garden pea) = partial 
               
               
                   
                   
                   
                   
                 (15%) 
               
               
                 TC241767 
                 GMGI.071508 
                 824186 
                 828116 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q7XHJ0 
               
               
                   
                   
                   
                   
                 Cluster: Formate 
               
               
                   
                   
                   
                   
                 dehydrogenase; n = 1; 
               
               
                   
                   
                   
                   
                   Quercus robur |Rep: 
               
               
                   
                   
                   
                   
                 Formate dehydrogenase - 
               
               
                   
                   
                   
                   
                   Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak) = partial (97%) 
               
               
                 TA40711_3847 
                   Glycine   —   max _release_2 
                 824209 
                 828372 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 AI522957 
                   Glycine   —   max _release_2 
                 826883 
                 827087 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 BG044450 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 826544 
                 827461 
                 Formate dehydrogenase = 
               
               
                   
                 release_2 
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Solanum tuberosum   
               
               
                   
                   
                   
                   
                 (Potato)] 
               
               
                 asmbl_11878 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 826586 
                 827463 
                 NA 
               
               
                 CA800817 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 826705 
                 827869 
                 Formate dehydrogenase 
               
               
                   
                 release_2 
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 TC240429 
                 GMGI.071508 
                 826957 
                 828379 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q9ZRI8 
               
               
                   
                   
                   
                   
                 Cluster: Formate 
               
               
                   
                   
                   
                   
                 dehydrogenase = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor; 
               
               
                   
                   
                   
                   
                 n = 1;  Hordeum vulgare |Rep: 
               
               
                   
                   
                   
                   
                 Formate dehydrogenase = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor - 
               
               
                   
                   
                   
                   
                   Hordeum vulgare  (Barley) = 
               
               
                   
                   
                   
                   
                 partial (40%) 
               
               
                 AW350528 
                   Glycine   —   max _release_2 
                 826986 
                 828379 
                 Formate dehydrogenase 1 = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 BG882062 
                   Glycine   —   max _release_2 
                 827372 
                 828284 
                 Formate dehydrogenase 1 = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 BE347639 
                   Glycine   —   max _release_2 
                 827443 
                 828262 
                 Formate dehydrogenase 1 = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 CA782711 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 827371 
                 828357 
                 Formate dehydrogenase 1 = 
               
               
                   
                 release_2 
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 TA40821_3847 
                   Glycine   —   max _release_2 
                 829640 
                 832253 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 BE330555 
                   Glycine   —   max _release_2 
                 829875 
                 832057 
                 Formate dehydrogenase = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Solanum tuberosum   
               
               
                   
                   
                   
                   
                 (Potato)] 
               
               
                 BU090495 
                   Glycine   —   max _release_2 
                 829863 
                 832082 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 BG044406 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 829915 
                 832082 
                 Formate dehydrogenase 
               
               
                   
                 release_2 
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 AW508186 
                 GMGI.071508 
                 830914 
                 831336 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMA5 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (15%) 
               
               
                 M0129925 
                 SEQ LISTING 
                 830552 
                 831704 
                 SEQ ID NO: 14 
               
               
                 AW508186 
                   Glycine   —   max _release_2 
                 830914 
                 831970 
                 Formate dehydrogenase = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Solatium tuberosum   
               
               
                   
                   
                   
                   
                 (Potato)] 
               
               
                 AW508145 
                   Glycine   —   max _release_2 
                 830909 
                 832061 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 TA40373_3847 
                   Glycine   —   max _release_2 
                 830863 
                 832118 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 AW397259 
                   Glycine   —   max _release_2 
                 831219 
                 832141 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 TC261330 
                 GMGI.071508 
                 829795 
                 833576 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q7XHJ0 
               
               
                   
                   
                   
                   
                 Cluster: Formate 
               
               
                   
                   
                   
                   
                 dehydrogenase; n = 1; 
               
               
                   
                   
                   
                   
                   Quercus robur |Rep: 
               
               
                   
                   
                   
                   
                 Formate dehydrogenase - 
               
               
                   
                   
                   
                   
                   Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak) = partial (96%) 
               
               
                 TC249502 
                 GMGI.071508 
                 830866 
                 832529 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q7XHJ0 
               
               
                   
                   
                   
                   
                 Cluster: Formate 
               
               
                   
                   
                   
                   
                 dehydrogenase; n = 1; 
               
               
                   
                   
                   
                   
                   Quercus robur |Rep: 
               
               
                   
                   
                   
                   
                 Formate dehydrogenase - 
               
               
                   
                   
                   
                   
                   Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak) = partial (72%) 
               
               
                 TA40376_3847 
                   Glycine   —   max _release_2 
                 830879 
                 833356 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 asmbl_11879 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 831735 
                 833050 
                 NA 
               
               
                 AW569072 
                 GMGI.071508 
                 832471 
                 832890 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q7XHJ0 
               
               
                   
                   
                   
                   
                 Cluster: Formate 
               
               
                   
                   
                   
                   
                 dehydrogenase; n = 1; 
               
               
                   
                   
                   
                   
                   Quercus robur |Rep: 
               
               
                   
                   
                   
                   
                 Formate dehydrogenase - 
               
               
                   
                   
                   
                   
                   Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak) = partial (9%) 
               
               
                 AW569072 
                   Glycine   —   max _release_2 
                 832471 
                 832929 
                 Formate dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 TA40339_3847 
                   Glycine   —   max _release_2 
                 832130 
                 833531 
                 Formate dehydrogenase 1 = 
               
               
                   
                   
                   
                   
                 mitochondrial precursor 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  (Rice)] 
               
               
                 TA5191_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 832192 
                 833517 
                 Formate dehydrogenase 
               
               
                   
                 release_2 
                   
                   
                 [ Quercus robur  (English 
               
               
                   
                   
                   
                   
                 oak)] 
               
               
                 FD790937 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 833039 
                 833412 
                 UniRef100_A6N0B2 
               
               
                   
                   
                   
                   
                 Mitochondrial formate 
               
               
                   
                   
                   
                   
                 dehydrogenase 1 
               
               
                   
                   
                   
                   
                 (Fragment) n = 1 Tax =  Oryza   
               
               
                   
                   
                   
                   
                   sativa  Indica Group 
               
               
                   
                   
                   
                   
                 RepID = A6N0B2_ORYSI 
               
               
                   
                   
                   
                   
                 3.00E−30 
               
               
                 CA913454 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 841331 
                 841722 
                 NA 
               
               
                   
                 release_2 
               
               
                 TA70199_3847 
                   Glycine   —   max _release_2 
                 841305 
                 841824 
                 NA 
               
               
                 asmbl_11880 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 841326 
                 841889 
                 NA 
               
               
                 TA3611_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 841347 
                 842640 
                 Hypothetical protein 
               
               
                   
                 release_2 
                   
                   
                 OJ1593_C11.11 [ Oryza   
               
               
                   
                   
                   
                   
                   sativa  ( japonica  cultivar- 
               
               
                   
                   
                   
                   
                 group)] 
               
               
                 TA5381_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 841455 
                 842700 
                 Calcium homeostasis 
               
               
                   
                 release_1 
                   
                   
                 regulator CHoR1 [ Solanum   
               
               
                   
                   
                   
                   
                   tuberosum  (Potato)] 
               
               
                 TC20706 
                 LJGI.070108 
                 841455 
                 842700 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q5QTN8 
               
               
                   
                   
                   
                   
                 Cluster: Calcium 
               
               
                   
                   
                   
                   
                 homeostasis regulator 
               
               
                   
                   
                   
                   
                 CHoR1, n = 1,  Solanum   
               
               
                   
                   
                   
                   
                   tuberosum |Rep: Calcium 
               
               
                   
                   
                   
                   
                 homeostasis regulator 
               
               
                   
                   
                   
                   
                 CHoR1 -  Solanum   
               
               
                   
                   
                   
                   
                   tuberosum  (Potato), partial 
               
               
                   
                   
                   
                   
                 (52%) 
               
               
                 Pvcon2378 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 841347 
                 843522 
                 UniRef100_A7PMA9 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMA9_VITVI 
               
               
                   
                   
                   
                   
                 4.00E−94 
               
               
                 TC252755 
                 GMGI.071508 
                 841305 
                 843655 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMA9 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (74%) 
               
               
                 EX305183 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 841682 
                 843613 
                 UniRef100_A7PMA9 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMA9_VITVI 
               
               
                   
                   
                   
                   
                 1.00E−67 
               
               
                 BI498351 
                 GMGI.071508 
                 844582 
                 845168 
                 NA 
               
               
                 TA66563_3847 
                   Glycine   —   max _release_2 
                 844582 
                 847078 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Ipomoea trifida  (Morning 
               
               
                   
                   
                   
                   
                 glory)] 
               
               
                 TC247953 
                 GMGI.071508 
                 844582 
                 847220 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q5T8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_54 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_54 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (58%) 
               
               
                 TA3593_3848 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 844668 
                 847194 
                 Hypothetical protein 
               
               
                   
                 release_2 
                   
                   
                 [ Ipomoea trifida  (Morning 
               
               
                   
                   
                   
                   
                 glory)] 
               
               
                 TA56324_3847 
                   Glycine   —   max _release_2 
                 854425 
                 856413 
                 Similarity to intracellular 
               
               
                   
                   
                   
                   
                 protein [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC235843 
                 GMGI.071508 
                 854425 
                 856413 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMB1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (40%) 
               
               
                 CD406351 
                   Glycine   —   max _release_2 
                 855627 
                 856402 
                 Similarity to intracellular 
               
               
                   
                   
                   
                   
                 protein [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 TC276442 
                 GMGI.071508 
                 855627 
                 856402 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMB1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (14%) 
               
               
                 TC273993 
                 GMGI.071508 
                 863632 
                 864262 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMB2 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (26%) 
               
               
                 BU082700 
                   Glycine   —   max _release_2 
                 863841 
                 864449 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 OJ1126_B10.9 [ Oryza   
               
               
                   
                   
                   
                   
                   sativa  ( japonica  cultivar- 
               
               
                   
                   
                   
                   
                 group)] 
               
               
                 AW459960 
                   Glycine   —   max _release_2 
                 863632 
                 865288 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 F4P13.4 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 AL385435 
                 MTGI.071708 
                 863952 
                 865397 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PD25 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr17 scaffold_12, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr17 
               
               
                   
                   
                   
                   
                 scaffold_12, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (37%) 
               
               
                 AI856244 
                 GMGI.071508 
                 864500 
                 864958 
                 UniRef100_A7PMB2 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (6%) 
               
               
                 asmbl_11881 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 863829 
                 865710 
                 NA 
               
               
                 TC238318 
                 GMGI.071508 
                 863970 
                 865869 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMB2 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (34%) 
               
               
                 TA63907_3847 
                   Glycine   —   max _release_2 
                 864500 
                 865869 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 F4P13.4 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 BW598574 
                 LJGI.070108 
                 865265 
                 865656 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q8LES3 
               
               
                   
                   
                   
                   
                 Cluster: Protein kinase, 
               
               
                   
                   
                   
                   
                 n = 1,  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana |Rep: Protein kinase - 
               
               
                   
                   
                   
                   
                 
                   Arabidopsis thaliana 
                 
               
               
                   
                   
                   
                   
                 (Mouse-ear cress), partial 
               
               
                   
                   
                   
                   
                 (9%) 
               
               
                 BW598574 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 865265 
                 865674 
                 Protein kinase [ Arabidopsis   
               
               
                   
                 release_1 
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 CD400016 
                   Glycine   —   max _release_2 
                 870972 
                 871184 
                 NA 
               
               
                 CD399245 
                   Glycine   —   max _release_2 
                 870876 
                 871427 
                 Putative Peptidyl-prolyl cis- 
               
               
                   
                   
                   
                   
                 trans isomerase = 
               
               
                   
                   
                   
                   
                 chloroplast [ Oryza sativa   
               
               
                   
                   
                   
                   
                 ( japonica  cultivar-group)] 
               
               
                 TC242592 
                 GMGI.071508 
                 870943 
                 872827 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A6MZC4 
               
               
                   
                   
                   
                   
                 Cluster: Peptidyl-prolyl cis- 
               
               
                   
                   
                   
                   
                 trans isomerase; n = 2;  Oryza   
               
               
                   
                   
                   
                   
                   sativa |Rep: Peptidyl-prolyl 
               
               
                   
                   
                   
                   
                 cis-trans isomerase -  Oryza   
               
               
                   
                   
                   
                   
                   sativa  subsp.  indica  (Rice) = 
               
               
                   
                   
                   
                   
                 partial (60%) 
               
               
                 CB543642 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 871229 
                 872777 
                 Peptidyl-prolyl cis-trans 
               
               
                   
                 release_2 
                   
                   
                 isomerase = chloroplast 
               
               
                   
                   
                   
                   
                 precursor [ Spinacia   
               
               
                   
                   
                   
                   
                   oleracea  (Spinach)] 
               
               
                 TA52959_3847 
                   Glycine   —   max _release_2 
                 870943 
                 873450 
                 Poly(A) polymerase [ Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea)] 
               
               
                 CB539263 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 871195 
                 873325 
                 Poly(A) polymerase [ Pisum   
               
               
                   
                 release_2 
                   
                   
                   sativum  (Garden pea)] 
               
               
                 Pvcon1578 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 870946 
                 876143 
                 UniRef100_O22636 
               
               
                   
                   
                   
                   
                 Poly(A) polymerase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Pisum sativum   
               
               
                   
                   
                   
                   
                 RepID = O22636_PEA E−0 
               
               
                 TA10487_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 873266 
                 875963 
                 Poly(A) polymerase [ Pisum   
               
               
                   
                 release_1 
                   
                   
                   sativum  (Garden pea)] 
               
               
                 TA6667_47247 
                 
                   Lotus 
                   — 
                   corniculatus 
                   — 
                 
                 873266 
                 875963 
                 Poly(A) polymerase related 
               
               
                   
                 release_1 
                   
                   
                 cluster 
               
               
                 TC34747 
                 LJGI.070108 
                 873266 
                 875963 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_O22636 
               
               
                   
                   
                   
                   
                 Cluster: Poly(A) 
               
               
                   
                   
                   
                   
                 polymerase, n = 1,  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Poly(A) 
               
               
                   
                   
                   
                   
                 polymerase -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea), 
               
               
                   
                   
                   
                   
                 partial (57%) 
               
               
                 BG363373 
                   Glycine   —   max _release_2 
                 874357 
                 874944 
                 Poly(A) polymerase [ Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea)] 
               
               
                 TC251420 
                 GMGI.071508 
                 874369 
                 876078 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_O22636 
               
               
                   
                   
                   
                   
                 Cluster: Poly(A) 
               
               
                   
                   
                   
                   
                 polymerase; n = 1;  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Poly(A) 
               
               
                   
                   
                   
                   
                 polymerase -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea) = 
               
               
                   
                   
                   
                   
                 partial (37%) 
               
               
                 CA901088 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 874490 
                 876191 
                 Poly(A) polymerase [ Pisum   
               
               
                   
                 release_2 
                   
                   
                   sativum  (Garden pea)] 
               
               
                 asmbl_11882 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 886629 
                 890018 
                 NA 
               
               
                 TA68870_3847 
                   Glycine   —   max _release_2 
                 886534 
                 893419 
                 Senescence-associated 
               
               
                   
                   
                   
                   
                 protein-like [ Oryza sativa   
               
               
                   
                   
                   
                   
                 ( japonica  cultivar-group)] 
               
               
                 TC270337 
                 GMGI.071508 
                 886672 
                 893419 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PD28 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr17 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr17 
               
               
                   
                   
                   
                   
                 scaffold_12 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (86%) 
               
               
                 M0205537 
                 SEQ. Listing 
                 890458 
                 890051 
                 SEQ ID NO: 15 
               
               
                 BM732054 
                   Glycine   —   max _release_2 
                 899859 
                 901015 
                 NA 
               
               
                 BM732054 
                 GMGI.071508 
                 900006 
                 901015 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q04TD2 
               
               
                   
                   
                   
                   
                 Cluster: MviN-related 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Leptospira   
               
               
                   
                   
                   
                   
                   borgpetersenii  serovar 
               
               
                   
                   
                   
                   
                 Hardjo-bovis JB197|Rep: = 
               
               
                   
                   
                   
                   
                 partial (2%) 
               
               
                 toGm13 
                 DAGchainer 
                 816170 
                 1014875 
                 Ks0.1202 
               
               
                 M0202715 
                 SEQ. Listing 
                 921233 
                 921630 
                 SEQ ID NO: 16 
               
               
                 TA46168_3847 
                   Glycine   —   max _release_2 
                 921047 
                 924660 
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 
               
               
                   
                   
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 TC260016 
                 GMGI.071508 
                 921056 
                 924739 
                 homologue to 
               
               
                   
                   
                   
                   
                 UniRef100_Q93XA3 
               
               
                   
                   
                   
                   
                 Cluster: Homeodomain 
               
               
                   
                   
                   
                   
                 leucine zipper protein 
               
               
                   
                   
                   
                   
                 HDZ3; n = 1;  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris |Rep: 
               
               
                   
                   
                   
                   
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 - 
               
               
                   
                   
                   
                   
                   Phaseolus vulgaris  (Kidney 
               
               
                   
                   
                   
                   
                 bean) (French bean) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 Pvcon1101 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 921086 
                 924758 
                 UniRef100_Q93XA3 
               
               
                   
                   
                   
                   
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 
               
               
                   
                   
                   
                   
                 (Fragment) n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 RepID = Q93XA3_PHAVU 
               
               
                   
                   
                   
                   
                 1.00E−124 
               
               
                 TA3604_3885 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 921111 
                 924754 
                 Homeodomain leucine 
               
               
                   
                 release_2 
                   
                   
                 zipper protein HDZ3 
               
               
                   
                   
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 asmbl_11883 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 921538 
                 924758 
                 NA 
               
               
                 BG041631 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 923015 
                 923340 
                 Homeobox-leucine zipper 
               
               
                   
                 release_2 
                   
                   
                 protein HAT5 [ Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress)] 
               
               
                 AV421688 
                 LJGI.070108 
                 923118 
                 924180 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q93XA3 
               
               
                   
                   
                   
                   
                 Cluster: Homeodomain 
               
               
                   
                   
                   
                   
                 leucine zipper protein 
               
               
                   
                   
                   
                   
                 HDZ3, n = 1,  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris |Rep: 
               
               
                   
                   
                   
                   
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 - 
               
               
                   
                   
                   
                   
                   Phaseolus vulgaris  (Kidney 
               
               
                   
                   
                   
                   
                 bean) (French bean), partial 
               
               
                   
                   
                   
                   
                 (25%) 
               
               
                 TC235979 
                 GMGI.071508 
                 923000 
                 924768 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q93XA3 
               
               
                   
                   
                   
                   
                 Cluster: Homeodomain 
               
               
                   
                   
                   
                   
                 leucine zipper protein 
               
               
                   
                   
                   
                   
                 HDZ3; n = 1;  Phaseolus   
               
               
                   
                   
                   
                   
                   vulgaris |Rep: 
               
               
                   
                   
                   
                   
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 - 
               
               
                   
                   
                   
                   
                   Phaseolus vulgaris  (Kidney 
               
               
                   
                   
                   
                   
                 bean) (French bean) = 
               
               
                   
                   
                   
                   
                 partial (86%) 
               
               
                 TA46165_3847 
                   Glycine   —   max _release_2 
                 923000 
                 924779 
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 
               
               
                   
                   
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 AW351287 
                   Glycine   —   max _release_2 
                 923128 
                 924720 
                 Homeodomain leucine 
               
               
                   
                   
                   
                   
                 zipper protein HDZ3 
               
               
                   
                   
                   
                   
                 [ Phaseolus vulgaris   
               
               
                   
                   
                   
                   
                 (Kidney bean) (French 
               
               
                   
                   
                   
                   
                 bean)] 
               
               
                 CA785782 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 925713 
                 925880 
                 NA 
               
               
                   
                 release_2 
               
               
                 Pvcon8364 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 925735 
                 926609 
                 UniRef100_A7PMB7 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMB7_VITVI 
               
               
                   
                   
                   
                   
                 1.00E−27 
               
               
                 BE248998 
                 MTGI.071708 
                 926978 
                 927524 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q7F8S7 
               
               
                   
                   
                   
                   
                 Cluster: PHD finger-like 
               
               
                   
                   
                   
                   
                 protein, n = 1,  Oryza sativa   
               
               
                   
                   
                   
                   
                   Japonica  Group|Rep: PHD 
               
               
                   
                   
                   
                   
                 finger-like protein -  Oryza   
               
               
                   
                   
                   
                   
                   sativa  subsp.  japonica   
               
               
                   
                   
                   
                   
                 (Rice), partial (4%) 
               
               
                 TC35470 
                 LJGI.070108 
                 928423 
                 929804 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMB8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (9%) 
               
               
                 TA11035_34305 
                 
                   Lotus 
                   — 
                   japonicus 
                   — 
                 
                 928423 
                 929825 
                 PHD finger-like protein 
               
               
                   
                 release_1 
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 CA911004 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 934882 
                 939256 
                 T13O15.10 protein 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 AI856399 
                 GMGI.071508 
                 937577 
                 938041 
                 NA 
               
               
                 AI856399 
                   Glycine   —   max _release_2 
                 937577 
                 938106 
                 NA 
               
               
                 AW348703 
                   Glycine   —   max _release_2 
                 963043 
                 963750 
                 NA 
               
               
                 TC276191 
                 GMGI.071508 
                 963049 
                 964044 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PZY3 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr8 
               
               
                   
                   
                   
                   
                 scaffold_41 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr8 
               
               
                   
                   
                   
                   
                 scaffold_41 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (21%) 
               
               
                 BQ628183 
                   Glycine   —   max _release_2 
                 963625 
                 964044 
                 NA 
               
               
                 BQ080193 
                   Glycine   —   max _release_2 
                 963695 
                 967475 
                 NA 
               
               
                 TA52645_3847 
                   Glycine   —   max _release_2 
                 963720 
                 967461 
                 NA 
               
               
                 TC256882 
                 GMGI.071508 
                 963774 
                 967475 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PZY3 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr8 
               
               
                   
                   
                   
                   
                 scaffold_41 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr8 
               
               
                   
                   
                   
                   
                 scaffold_41 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (45%) 
               
               
                 BG156825 
                   Glycine   —   max _release_2 
                 971121 
                 971284 
                 NA 
               
               
                 BG156825 
                 GMGI.071508 
                 971125 
                 971284 
                 NA 
               
               
                 BU545761 
                   Glycine   —   max _release_2 
                 971300 
                 971901 
                 NA 
               
               
                 BU550718 
                   Glycine   —   max _release_2 
                 971255 
                 973578 
                 NA 
               
               
                 TA72701_3847 
                   Glycine   —   max _release_2 
                 972120 
                 972806 
                 NA 
               
               
                 TC271942 
                 GMGI.071508 
                 972201 
                 972806 
                 NA 
               
               
                 TC269989 
                 GMGI.071508 
                 971255 
                 973827 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7P2M9 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (63%) 
               
               
                 BI317782 
                   Glycine   —   max _release_2 
                 971510 
                 973827 
                 NA 
               
               
                 BI893512 
                   Glycine   —   max _release_2 
                 971537 
                 973848 
                 NA 
               
               
                 BI893512 
                 GMGI.071508 
                 971671 
                 973848 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7P2M9 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence; n = 1; 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_5 = whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape) = partial 
               
               
                   
                   
                   
                   
                 (54%) 
               
               
                 CO985587 
                   Glycine   —   max _release_2 
                 974859 
                 976255 
                 Putative GTP-binding 
               
               
                   
                   
                   
                   
                 membrane protein LepA 
               
               
                   
                   
                   
                   
                 [ Oryza sativa  ( japonica   
               
               
                   
                   
                   
                   
                 cultivar-group)] 
               
               
                 AW596868 
                   Glycine   —   max _release_2 
                 976346 
                 976856 
                 NA 
               
               
                 AW596868 
                 GMGI.071508 
                 976412 
                 976856 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A2Q5T1 
               
               
                   
                   
                   
                   
                 Cluster: Tetratricopeptide- 
               
               
                   
                   
                   
                   
                 like helical; n = 1;  Medicago   
               
               
                   
                   
                   
                   
                   truncatula |Rep: 
               
               
                   
                   
                   
                   
                 Tetratricopeptide-like 
               
               
                   
                   
                   
                   
                 helical -  Medicago   
               
               
                   
                   
                   
                   
                   truncatula  (Barrel medic) = 
               
               
                   
                   
                   
                   
                 partial (5%) 
               
               
                 CA901672 
                 
                   Phaseolus 
                   — 
                   coccineus 
                   — 
                 
                 983905 
                 984264 
                 Aldehyde dehydrogenase 1 
               
               
                   
                 release_2 
                   
                   
                 precursor [ Lotus   
               
               
                   
                   
                   
                   
                   corniculatus  (Bird&#39;s-foot 
               
               
                   
                   
                   
                   
                 trefoil) 
               
               
                 WmFPC_Contig4169 
                   
                 899736 
                 1068750 
                 NA 
               
               
                 FE898889 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 983908 
                 984989 
                 UniRef100_A7PD33 
               
               
                   
                   
                   
                   
                 Chromosome chr17 
               
               
                   
                   
                   
                   
                 scaffold_12, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PD33_VITVI 
               
               
                   
                   
                   
                   
                 2.00E−79 
               
               
                 TC273361 
                 GMGI.071508 
                 984396 
                 986122 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_P93344 
               
               
                   
                   
                   
                   
                 Cluster: Aldehyde 
               
               
                   
                   
                   
                   
                 dehydrogenase; n = 1; 
               
               
                   
                   
                   
                   
                   Nicotiana tabacum |Rep: 
               
               
                   
                   
                   
                   
                 Aldehyde dehydrogenase - 
               
               
                   
                   
                   
                   
                 
                   Nicotiana tabacum 
                 
               
               
                   
                   
                   
                   
                 (Common tobacco) = partial 
               
               
                   
                   
                   
                   
                 (37%) 
               
               
                 BE473475 
                   Glycine   —   max _release_2 
                 984960 
                 986122 
                 Aldehyde dehydrogenase 
               
               
                   
                   
                   
                   
                 [ Nicotiana tabacum   
               
               
                   
                   
                   
                   
                 (Common tobacco)] 
               
               
                 CV539672 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 985959 
                 987101 
                 UniRef100_P93344 
               
               
                   
                   
                   
                   
                 Aldehyde dehydrogenase 
               
               
                   
                   
                   
                   
                 (NAD+) n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Nicotiana tabacum   
               
               
                   
                   
                   
                   
                 RepID = P93344_TOBAC 
               
               
                   
                   
                   
                   
                 7.00E−50 
               
               
                 AV410805 
                 LJGI.070108 
                 987592 
                 987888 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMC7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (6%) 
               
               
                 TC265505 
                 GMGI.071508 
                 1011306 
                 1012664 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (28%) 
               
               
                 TA51641_3847 
                   Glycine   —   max _release_2 
                 1011306 
                 1013783 
                 Putative high-affinity 
               
               
                   
                   
                   
                   
                 potassium transporter 
               
               
                   
                   
                   
                   
                 protein 1 [ Nicotiana   
               
               
                   
                   
                   
                   
                   tabacum  (Common 
               
               
                   
                   
                   
                   
                 tobacco)] 
               
               
                 CB540416 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 1012333 
                 1013531 
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMD1_VITVI 
               
               
                   
                   
                   
                   
                 5.00E−97 
               
               
                 BM891067 
                 GMGI.071508 
                 1012675 
                 1013617 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (22%) 
               
               
                 TC131883 
                 MTGI.071708 
                 1012665 
                 1014070 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21, whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence, 
               
               
                   
                   
                   
                   
                 n = 1,  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (34%) 
               
               
                 asmbl_11884 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 1012674 
                 1014123 
                 NA 
               
               
                 BE330787 
                   Glycine   —   max _release_2 
                 1013888 
                 1014305 
                 Putative high-affinity 
               
               
                   
                   
                   
                   
                 potassium transporter 
               
               
                   
                   
                   
                   
                 protein [ Phytolacca   
               
               
                   
                   
                   
                   
                   esculenta  (Food 
               
               
                   
                   
                   
                   
                 pokeberry)] 
               
               
                 FD792954 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 1013779 
                 1014573 
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMD1_VITVI 
               
               
                   
                   
                   
                   
                 3.00E−57 
               
               
                 TC244134 
                 GMGI.071508 
                 1014004 
                 1014793 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (15%) 
               
               
                 TA51642_3847 
                   Glycine   —   max _release_2 
                 1013926 
                 1014875 
                 Putative high-affinity 
               
               
                   
                   
                   
                   
                 potassium transporter 1 
               
               
                   
                   
                   
                   
                 [ Nicotiana rustica  (Aztec 
               
               
                   
                   
                   
                   
                 tobacco)] 
               
               
                 TC242106 
                 GMGI.071508 
                 1013926 
                 1014875 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD1 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (15%) 
               
               
                 BI970123 
                   Glycine   —   max _release_2 
                 1014128 
                 1014721 
                 Putative potassium 
               
               
                   
                   
                   
                   
                 transporter HAK1p 
               
               
                   
                   
                   
                   
                 [ Mesembryanthemum   
               
               
                   
                   
                   
                   
                   crystallinum  (Common ice 
               
               
                   
                   
                   
                   
                 plant)] 
               
               
                 BQ080303 
                   Glycine   —   max _release_2 
                 1018604 
                 1019142 
                 NA 
               
               
                 TC270109 
                 GMGI.071508 
                 1018604 
                 1019142 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_UPI0000196D3 
               
               
                   
                   
                   
                   
                 9 Cluster: NHL repeat- 
               
               
                   
                   
                   
                   
                 containing protein; n = 1; 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 NHL repeat-containing 
               
               
                   
                   
                   
                   
                 protein -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  = partial (4%) 
               
               
                 BQ080219 
                   Glycine   —   max _release_2 
                 1018604 
                 1019579 
                 NA 
               
               
                 TA62145_3847 
                   Glycine   —   max _release_2 
                 1021347 
                 1023221 
                 NA 
               
               
                 TC245123 
                 GMGI.071508 
                 1021347 
                 1023221 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD2 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (31%) 
               
               
                 asmbl_11885 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 1022417 
                 1022510 
                 NA 
               
               
                 CA784724 
                   Glycine   —   max _release_2 
                 1046117 
                 1047384 
                 NA 
               
               
                 CA784724 
                 GMGI.071508 
                 1046400 
                 1047384 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q2E7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_46 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_46 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (17%) 
               
               
                 Pvcon4015 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 1047011 
                 1048610 
                 UniRef100_A5ATC1 
               
               
                   
                   
                   
                   
                 Putative uncharacterized 
               
               
                   
                   
                   
                   
                 protein n = 1 Tax =  Vitis   
               
               
                   
                   
                   
                   
                 
                   vinifera 
                 
               
               
                   
                   
                   
                   
                 RepID = A5ATC1_VITVI 
               
               
                   
                   
                   
                   
                 1.00E−146 
               
               
                 BQ742289 
                   Glycine   —   max _release_2 
                 1048650 
                 1048767 
                 NA 
               
               
                 BF068315 
                 GMGI.071508 
                 1057203 
                 1057316 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q8MIG1 
               
               
                   
                   
                   
                   
                 Cluster: Skinkine; n = 1;  Sus   
               
               
                   
                   
                   
                   
                   scrofa |Rep: Skinkine -  Sus   
               
               
                   
                   
                   
                   
                   scrofa  (Pig) = partial (12%) 
               
               
                 BF068315 
                   Glycine   —   max _release_2 
                 1057203 
                 1057506 
                 NA 
               
               
                 BU083500 
                 GMGI.071508 
                 1058026 
                 1058431 
                 UniRef100_Q2R023 
               
               
                   
                   
                   
                   
                 Cluster: Expressed protein; 
               
               
                   
                   
                   
                   
                 n = 1;  Oryza sativa    Japonica   
               
               
                   
                   
                   
                   
                 Group|Rep: Expressed 
               
               
                   
                   
                   
                   
                 protein -  Oryza sativa  = 
               
               
                   
                   
                   
                   
                 partial (2%) 
               
               
                 TA74227_3847 
                   Glycine   —   max _release_2 
                 1058026 
                 1059408 
                 NA 
               
               
                 BI423963 
                 GMGI.071508 
                 1058432 
                 1059275 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q2QDD6 
               
               
                   
                   
                   
                   
                 Cluster: Nodulin-like 
               
               
                   
                   
                   
                   
                 protein; n = 1;  Gossypium   
               
               
                   
                   
                   
                   
                   hirsutum |Rep: Nodulin-like 
               
               
                   
                   
                   
                   
                 protein -  Gossypium   
               
               
                   
                   
                   
                   
                   hirsutum  (Upland cotton) 
               
               
                   
                   
                   
                   
                 ( Gossypium mexicanum ) = 
               
               
                   
                   
                   
                   
                 partial (22%) 
               
               
                 TC237120 
                 GMGI.071508 
                 1063015 
                 1063972 
                 UniRef100_Q39819 
               
               
                   
                   
                   
                   
                 Cluster: Hsp22.3; n = 1; 
               
               
                   
                   
                   
                   
                   Glycine max |Rep: Hsp22.3 - 
               
               
                   
                   
                   
                   
                   Glycine max  (Soybean) = 
               
               
                   
                   
                   
                   
                 complete 
               
               
                 CA802234 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 1061477 
                 1067499 
                 Similarity to nodulin 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 BI425574 
                 GMGI.071508 
                 1065519 
                 1066854 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (21%) 
               
               
                 BI425574 
                   Glycine   —   max _release_2 
                 1065519 
                 1066940 
                 Hypothetical protein 
               
               
                   
                   
                   
                   
                 [ Medicago truncatula   
               
               
                   
                   
                   
                   
                 (Barrel medic)] 
               
               
                 AU251786 
                 LJGI.070108 
                 1066790 
                 1067424 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7Q2G7 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_46, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence, n = 1, 
               
               
                   
                   
                   
                   
                   Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr1 
               
               
                   
                   
                   
                   
                 scaffold_46, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence -  Vitis   
               
               
                   
                   
                   
                   
                   vinifera  (Grape), partial 
               
               
                   
                   
                   
                   
                 (7%) 
               
               
                 Pvcon8451 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 1065511 
                 1068752 
                 UniRef100_A7PMD8 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMD8_VITVI 
               
               
                   
                   
                   
                   
                 7.00E−91 
               
               
                 TC260900 
                 GMGI.071508 
                 1065796 
                 1069134 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (41%) 
               
               
                 TA63020_3847 
                   Glycine   —   max _release_2 
                 1067436 
                 1069134 
                 NA 
               
               
                 CA783703 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 1068257 
                 1068879 
                 NA 
               
               
                   
                 release_2 
               
               
                 TA58065_3847 
                   Glycine   —   max _release_2 
                 1074998 
                 1076541 
                 AT3g28050/MMG15_6 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC251785 
                 GMGI.071508 
                 1074998 
                 1076541 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q8L9I2 
               
               
                   
                   
                   
                   
                 Cluster: Nodulin MtN21- 
               
               
                   
                   
                   
                   
                 like protein; n = 1; 
               
               
                   
                   
                   
                   
                   Arabidopsis thaliana |Rep: 
               
               
                   
                   
                   
                   
                 Nodulin MtN21-like 
               
               
                   
                   
                   
                   
                 protein -  Arabidopsis   
               
               
                   
                   
                   
                   
                   thaliana  (Mouse-ear cress) = 
               
               
                   
                   
                   
                   
                 partial (16%) 
               
               
                 CB280623 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                   — 
                 
                 1075036 
                 1076540 
                 AT3g28050/MMG15_6 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 EH043320 
                 
                   Arachis 
                   — 
                   stenosperma 
                   — 
                 
                 1075056 
                 1077422 
                 Cluster: Hypothetical 
               
               
                   
                 release_5 
                   
                   
                 protein, n = 1,  Medicago   
               
               
                   
                   
                   
                   
                   truncatula |Rep: 
               
               
                   
                   
                   
                   
                 Hypothetical protein - 
               
               
                   
                   
                   
                   
                 
                   Medicago truncatula 
                 
               
               
                   
                   
                   
                   
                 (Barrel medic) 
               
               
                 asmbl_11886 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 1075036 
                 1077585 
                 NA 
               
               
                 BQ094260 
                   Glycine   —   max _release_2 
                 1075548 
                 1077551 
                 Nodulin-like protein 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 BF598290 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 1075557 
                 1077593 
                 Nodulin-like protein 
               
               
                   
                 release_2 
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 Pvcon6314 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 1075036 
                 1078733 
                 UniRef100_A7PMD8 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21, whole genome 
               
               
                   
                   
                   
                   
                 shotgun sequence n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Vitis vinifera   
               
               
                   
                   
                   
                   
                 RepID = A7PMD8_VITVI 
               
               
                   
                   
                   
                   
                 1.00E−105 
               
               
                 TA58064_3847 
                   Glycine   —   max _release_2 
                 1075337 
                 1079189 
                 AT3g28050/MMG15_6 
               
               
                   
                   
                   
                   
                 [ Arabidopsis thaliana   
               
               
                   
                   
                   
                   
                 (Mouse-ear cress)] 
               
               
                 TC255833 
                 GMGI.071508 
                 1075337 
                 1079189 
                 weakly similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PMD8 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (64%) 
               
               
                 BG042956 
                 
                   Glycine 
                   — 
                   soja 
                   — 
                 
                 1078885 
                 1079014 
                 NA 
               
               
                   
                 release_2 
               
               
                 TC263589 
                 GMGI.071508 
                 1086875 
                 1091139 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_A7PME0 
               
               
                   
                   
                   
                   
                 Cluster: Chromosome 
               
               
                   
                   
                   
                   
                 chr14 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence; 
               
               
                   
                   
                   
                   
                 n = 1;  Vitis vinifera |Rep: 
               
               
                   
                   
                   
                   
                 Chromosome chr14 
               
               
                   
                   
                   
                   
                 scaffold_21 = whole 
               
               
                   
                   
                   
                   
                 genome shotgun sequence - 
               
               
                   
                   
                   
                   
                   Vitis vinifera  (Grape) = 
               
               
                   
                   
                   
                   
                 partial (35%) 
               
               
                 TA50577_3847 
                   Glycine   —   max _release_2 
                 1086875 
                 1094082 
                 Alpha-dioxygenase [ Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea)] 
               
               
                 asmbl_11887 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 1089135 
                 1092345 
                 NA 
               
               
                 CA410123 
                 
                   Lupinus 
                   — 
                   albus 
                   — 
                 
                 1092182 
                 1092694 
                 Alpha-dioxygenase [ Pisum   
               
               
                   
                 release_2 
                   
                   
                   sativum  (Garden pea) 
               
               
                 Pvcon4974 
                 
                   Phaseolus 
                   — 
                   vulgaris 
                 
                 1091225 
                 1093836 
                 UniRef100_Q5GQ66 
               
               
                   
                   
                   
                   
                 Alpha-dioxygenase n = 1 
               
               
                   
                   
                   
                   
                 Tax =  Pisum sativum   
               
               
                   
                   
                   
                   
                 RepID = Q5GQ66_PEA E−0 
               
               
                 TC243973 
                 GMGI.071508 
                 1091177 
                 1094141 
                 similar to 
               
               
                   
                   
                   
                   
                 UniRef100_Q5GQ66 
               
               
                   
                   
                   
                   
                 Cluster: Alpha- 
               
               
                   
                   
                   
                   
                 dioxygenase; n = 1;  Pisum   
               
               
                   
                   
                   
                   
                   sativum |Rep: Alpha- 
               
               
                   
                   
                   
                   
                 dioxygenase -  Pisum   
               
               
                   
                   
                   
                   
                   sativum  (Garden pea) = 
               
               
                   
                   
                   
                   
                 partial (61%) 
               
               
                 asmbl_11888 
                 
                   Vigna 
                   — 
                   unguiculata 
                 
                 1092518 
                 1093829 
                 NA 
               
               
                 M0206286 
                 SEQ. Listing 
                 1209562 
                 1210392 
                 SEQ ID NO: 17 
               
               
                 M0206054 
                 SEQ. Listing 
                 1465522 
                 1465187 
                 SEQ ID NO: 18 
               
               
                 M0205375 
                 SEQ. Listing 
                 2010060 
                 2009541 
                 SEQ ID NO: 19 
               
               
                 toGm13 
                 DAGchainer 
                 1046081 
                 4647877 
                 Ks0.2059 
               
               
                 NA 
                 Glyma1 
                 1 
                 50600000 
                 NA 
               
               
                   
               
            
           
         
       
     
     Sequences for the genes provided above can be obtained from the World Wide Web (or Internet) using the identifiers provided in Column 1 (Locus/Display Name) or Column 5 (ADDITIONAL LOCUS INFORMATION) from the following internet locations: “soybase.org” (described in Grant et al., Nucleic Acids Research, 2010, Vol. 38, Database issue D843-D846) or soybase.org/gbrowse/cgi-bin/gbrowse/gmax1.01/(see Hyten D L, Choi I-Y, Song Q, Specht J E, Carter T E et al. (2010) A high density integrated genetic linkage map of soybean and the development of a 1,536 Universal Soy Linkage Panel for QTL mapping. Crop Science 50:960-968. (Crop Science); and Hyten D L, Cannon S B, Song Q, Weeks N, Fickus E W et al. (2010) High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence. BMC Genomics 11(1): 38); 
     “phytozome.net” or “phytozome.net/cgi-bin/gbrowse/soybean/?name=Gm09”; 
     “www.plantgdb.org” or “plantgdb.org/GmGDB/ (Assembly version Glyma1.170 (April 2009)”; and, 
     “ncbi.nlm.nih.gov/sites/entrez” and subsites “ncbi.nlm.nih.gov/nucest”, 
     “ncbi.nlm.nih.gov/dbEST”, “ncbi.nlm.nih.gov/genbank/”, “.ncbi.nlm.nih.gov/sites/genome”, 
     “ncbi.nlm.nih.gov/unigene”, and “ncbi.nlm.nih.gov/UniGene/UGOrg.cgi?TAXID=3847”.