Материалы:NC 008309

LOCUS NC_008309 2007700 bp DNA circular BCT 16-AUG-2007 DEFINITION Haemophilus somnus 129PT, complete genome. ACCESSION NC_008309 VERSION NC_008309.1 GI:113460149 KEYWORDS . SOURCE Haemophilus somnus 129PT ORGANISM Haemophilus somnus 129PT Bacteria; Proteobacteria; Gammaproteobacteria; Pasteurellales; Pasteurellaceae; Histophilus. REFERENCE 1 (bases 1 to 2007700) AUTHORS Challacombe,J.F., Duncan,A.J., Brettin,T.S., Bruce,D., Chertkov,O., Detter,J.C., Han,C.S., Misra,M., Richardson,P., Tapia,R., Thayer,N., Xie,G. and Inzana,T.J. TITLE Complete genome sequence of Haemophilus somnus (Histophilus somni) strain 129Pt and comparison to Haemophilus ducreyi 35000HP and Haemophilus influenzae Rd JOURNAL J. Bacteriol. 189 (5), 1890-1898 (2007) PUBMED 17172329 REFERENCE 2 (bases 1 to 2007700) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (30-AUG-2006) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 3 (bases 1 to 2007700) AUTHORS Copeland,A., Lucas,S., Lapidus,A., Barry,K., Glavina del Rio,T., Hammon,N., Dalin,E., Tice,H., Pitluck,S., Brettin,T.S., Bruce,D., Challacombe,J.F., Chertkov,O., Detter,J.C., Gilna,P., Han,S., Misra,M., Tapia,R., Thayer,N.N., Xie,G., Inzana,T.J., Duncan,A.J., Siddaramppa,S. and Richardson,P. TITLE Direct Submission JOURNAL Submitted (07-AUG-2006) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA COMMENT PROVISIONAL REFSEQ: This record has not yet been subject to final NCBI review. The reference sequence was derived from CP000436. URL -- http://www.jgi.doe.gov JGI Project ID: 2662200 Source DNA and bacteria available from Tom Inzana Contacts: Tom Inzana (tinzana@vt.edu) Paul Richardson (microbes@cuba.jgi-psf.org) Plasmid and fosmid libraries were prepared at the Joint Genome Institute (JGI) Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Shotgun sequencing was performed at the JGI-PGF. Large (40 kb), median (8 kb) and small (3 kb) insert random sequencing libraries were sequenced for this genome project with average success rate of 96% and average high-quality read lengths of 685 nucleotides. After shotgun stage, reads were assembled with parallel phrap (High Performance Software, LLC). Possible mis-assemblies were corrected with Dupfinisher (unpublished, S. Han) or transposon bomb of bridging clones. Gaps between contigs were closed by editing, custom primer walks or PCR amplification. The completed genome sequence of H. somnus 129PT contains 59147 reads, achieving an average of 18-fold sequence coverage per base with error rate less than 1 in 100,000. Gene predictions were obtained using Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis of the gene predictions was performed by comparing coding sequences against the PFam, BLOCKS, COGS and Prodom databases. Gene definitions and functional classes were added manually by a team of annotators at JGI-LANL, using BLAST results in addition to information from the basic analysis. A total of 1880 features have been annotated on the sequence record. The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis. (http://www.genome.gov/page.cfm?pageID=10506376). COMPLETENESS: full length.



## Расположение РНК

Начало | Конец | Направление | Длина | PID | Ген | COG | Комментарий |
---|---|---|---|---|---|---|---|

1316 | 1393 | + | 78 | 113460149 | HS_tPseudo01 | - | Xaa tRNA |

1397 | 1475 | + | 79 | 113460149 | HS_tAsn03 | - | 07 Asn tRNA
|

177054 | 177132 | - | 79 | 113460149 | HS_tThr01 | - | 12 Thr tRNA
|

177133 | 177210 | - | 78 | 113460149 | HS_tGly01 | - | 01 Gly tRNA
|

177250 | 177337 | - | 88 | 113460149 | HS_tTyr01 | - | 18 Tyr tRNA
|

177366 | 177444 | - | 79 | 113460149 | HS_tThr02 | - | 12 Thr tRNA
|

261158 | 261236 | + | 79 | 113460149 | HS_tLys01 | - | 10 Lys tRNA
|

261259 | 261337 | + | 79 | 113460149 | HS_tLys03 | - | 10 Lys tRNA
|

261360 | 261438 | + | 79 | 113460149 | HS_tLys02 | - | 10 Lys tRNA
|

327339 | 327431 | + | 93 | 113460149 | HS_tSer03 | - | 08 Ser tRNA
|

486229 | 486307 | - | 79 | 113460149 | HS_tAla03 | - | 02 Ala tRNA
|

488009 | 488087 | + | 79 | 113460149 | HS_tVal04 | - | 13 Val tRNA
|

488125 | 488203 | + | 79 | 113460149 | HS_tVal01 | - | 13 Val tRNA
|

488262 | 488340 | + | 79 | 113460149 | HS_tVal02 | - | 13 Val tRNA
|

561972 | 562061 | + | 90 | 113460149 | HS_tLeu01 | - | 15 Leu tRNA
|

646388 | 646467 | - | 80 | 113460149 | HS_tAsp02 | - | 06 Asp tRNA
|

646493 | 646572 | - | 80 | 113460149 | HS_tAsp03 | - | 06 Asp tRNA
|

766890 | 766969 | - | 80 | 113460149 | HS_tMet02 | - | 16 Met tRNA
|

772258 | 772354 | + | 97 | 113460149 | HS_tSer02 | - | 08 Ser tRNA
|

772362 | 772441 | + | 80 | 113460149 | HS_tArg02 | - | 11 Arg tRNA
|

772515 | 772594 | + | 80 | 113460149 | HS_tArg03 | - | 11 Arg tRNA
|

893293 | 893372 | + | 80 | 113460149 | HS_tMet01 | - | 16 Met tRNA
|

1124187 | 1124264 | - | 78 | 113460149 | HS_tGln01 | - | 05 Gln tRNA
|

1124308 | 1124385 | - | 78 | 113460149 | HS_tGln02 | - | 05 Gln tRNA
|

1124410 | 1124497 | - | 88 | 113460149 | HS_tLeu03 | - | 15 Leu tRNA
|

1124500 | 1124579 | - | 80 | 113460149 | HS_tMet03 | - | 16 Met tRNA
|

1195424 | 1195502 | + | 79 | 113460149 | HS_tAsn02 | - | 07 Asn tRNA
|

1234438 | 1234516 | + | 79 | 113460149 | HS_tGly03 | - | 01 Gly tRNA
|

1381469 | 1381548 | - | 80 | 113460149 | HS_tArg04 | - | 11 Arg tRNA
|

1381572 | 1381651 | - | 80 | 113460149 | HS_tPro02 | - | 03 Pro tRNA
|

1389530 | 1389609 | - | 80 | 113460149 | HS_tVal03 | - | 13 Val tRNA
|

1389669 | 1389782 | - | 114 | 113460149 | HS_r5S02 | - | 5S ribosomal RNA |

1389905 | 1392905 | + | 3001 | 113460149 | HS_r23S02 | - | 23S ribosomal RNA |

1393084 | 1393162 | - | 79 | 113460149 | HS_tGlu01 | - | 04 Glu tRNA
|

1393294 | 1394776 | - | 1483 | 113460149 | HS_r16S02 | - | 16S ribosomal RNA |

1394930 | 1395009 | - | 80 | 113460149 | HS_tPro01 | - | 03 Pro tRNA
|

1395013 | 1395091 | - | 79 | 113460149 | HS_tHis01 | - | 09 His tRNA
|

1395110 | 1395189 | - | 80 | 113460149 | HS_tArg01 | - | 11 Arg tRNA
|

1501839 | 1501927 | + | 89 | 113460149 | HS_tLeu04 | - | 15 Leu tRNA
|

1538413 | 1538491 | + | 79 | 113460149 | HS_tGly02 | - | 01 Gly tRNA
|

1538500 | 1538576 | + | 77 | 113460149 | HS_tCys01 | - | 19 Cys tRNA
|

1538598 | 1538687 | + | 90 | 113460149 | HS_tLeu02 | - | 15 Leu tRNA
|

1610992 | 1611084 | - | 93 | 113460149 | HS_tSer01 | - | 08 Ser tRNA
|

1640263 | 1640376 | - | 114 | 113460149 | HS_r5S05 | - | 5S ribosomal RNA |

1640499 | 1643499 | + | 3001 | 113460149 | HS_r23S05 | - | 23S ribosomal RNA |

1643712 | 1643790 | - | 79 | 113460149 | HS_tAla01 | - | 02 Ala tRNA
|

1643882 | 1643961 | - | 80 | 113460149 | HS_tIle01 | - | 14 Ile tRNA
|

1644077 | 1645561 | - | 1485 | 113460149 | HS_r16S05 | - | 16S ribosomal RNA |

1715918 | 1716031 | - | 114 | 113460149 | HS_r5S01 | - | 5S ribosomal RNA |

1716154 | 1719154 | + | 3001 | 113460149 | HS_r23S01 | - | 23S ribosomal RNA |

1719333 | 1719411 | - | 79 | 113460149 | HS_tGlu02 | - | 04 Glu tRNA
|

1719543 | 1721025 | - | 1483 | 113460149 | HS_r16S01 | - | 16S ribosomal RNA |

1774346 | 1774424 | - | 79 | 113460149 | HS_tTrp01 | - | 20 Trp tRNA
|

1774436 | 1774515 | - | 80 | 113460149 | HS_tAsp01 | - | 06 Asp tRNA
|

1774697 | 1774810 | - | 114 | 113460149 | HS_r5S04 | - | 5S ribosomal RNA |

1774933 | 1777933 | + | 3001 | 113460149 | HS_r23S04 | - | 23S ribosomal RNA |

1778112 | 1778190 | - | 79 | 113460149 | HS_tGlu03 | - | 04 Glu tRNA
|

1778322 | 1779804 | - | 1483 | 113460149 | HS_r16S04 | - | 16S ribosomal RNA |

1942556 | 1944038 | + | 1483 | 113460149 | HS_r16S03 | - | 16S ribosomal RNA |

1944156 | 1944235 | + | 80 | 113460149 | HS_tIle02 | - | 14 Ile tRNA
|

1944327 | 1944405 | + | 79 | 113460149 | HS_tAla02 | - | 02 Ala tRNA
|

1944618 | 1947618 | - | 3001 | 113460149 | HS_r23S03 | - | 23S ribosomal RNA |

1947741 | 1947852 | + | 112 | 113460149 | HS_r5S03 | - | 5S ribosomal RNA |

1952153 | 1952231 | + | 79 | 113460149 | HS_tPhe01 | - | 17 Phe tRNA
|

1952251 | 1952329 | + | 79 | 113460149 | HS_tAsn01 | - | 07 Asn tRNA
|