Материалы:NC 008255

LOCUS NC_008255 4433218 bp DNA circular BCT 25-JUL-2006 DEFINITION Cytophaga hutchinsonii ATCC 33406, complete genome. ACCESSION NC_008255 VERSION NC_008255.1 GI:110636427 KEYWORDS . SOURCE Cytophaga hutchinsonii ATCC 33406 ORGANISM Cytophaga hutchinsonii ATCC 33406 Bacteria; Bacteroidetes; Sphingobacteria; Sphingobacteriales; Flexibacteraceae; Cytophaga. REFERENCE 1 (bases 1 to 4433218) AUTHORS Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Brettin,T., Bruce,D., Challacombe,J.F., Chertkov,O., Han,S., Tapia,R., McBride,M.J., Misra,M., Myers,G.L., Thayer,N.N., Thompson,L.S., Xie,G., Gilna,P., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Lykidis,A., Ivanova,N., Mavrommatis,K., Rubin,E. and Richardson,P. CONSRTM US DOE Joint Genome Institute TITLE Complete sequence of Cytophaga hutchinsonii ATCC 33406 JOURNAL Unpublished REFERENCE 2 (bases 1 to 4433218) AUTHORS . CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (24-JUL-2006) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 3 (bases 1 to 4433218) AUTHORS Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Pitluck,S., Brettin,T., Bruce,D., Challacombe,J.F., Chertkov,O., Han,S., Tapia,R., McBride,M.J., Misra,M., Myers,G.L., Thayer,N.N., Thompson,L.S., Xie,G., Gilna,P., Schmutz,J., Larimer,F., Land,M., Hauser,L., Kyrpides,N., Lykidis,A., Ivanova,N., Mavrommatis,K., Rubin,E. and Richardson,P. CONSRTM US DOE Joint Genome Institute TITLE Direct Submission JOURNAL Submitted (02-JUN-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 CP000383. URL -- http://www.jgi.doe.gov JGI Project ID: 2351473 Source DNA and bacteria available from Mark McBride Contacts: Mark McBride (mcbride@uwm.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 to a coverage of 15x. Large (40 kb), medium (8 kb) and small (3 kb) insert random libraries were partially sequenced with average success rate of 90% and average high-quality read lengths of 634 nucleotides. Finishing was performed at JGI-LANL starting with 29 contigs and 2 scaffolds. Repetitive regions were identified, assembled and finished by manually checking paired reads close to each repeat in the assembly with consed and then making a subassembly for each repetitive region. 27 gaps were closed with primer walks and 2 by PCR. 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 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 3793 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 |
---|---|---|---|---|---|---|---|

63356 | 63435 | - | 80 | 110636427 | CHU_tAsn01 | - | 07 Asn tRNA
|

69568 | 69647 | - | 80 | 110636427 | CHU_tAla01 | - | 02 Ala tRNA
|

120118 | 121499 | + | 1382 | 110636427 | CHU_r16S01 | - | 16S ribosomal RNA |

121927 | 124436 | + | 2510 | 110636427 | CHU_r23S01 | - | 23S ribosomal RNA |

124780 | 124816 | + | 37 | 110636427 | CHU_r5S01 | - | 5S ribosomal RNA |

145782 | 145857 | - | 76 | 110636427 | CHU_tPhe01 | - | 17 Phe tRNA
|

178917 | 178992 | + | 76 | 110636427 | CHU_tGly01 | - | 01 Gly tRNA
|

179045 | 179136 | + | 92 | 110636427 | CHU_tLeu01 | - | 15 Leu tRNA
|

183235 | 184616 | + | 1382 | 110636427 | CHU_r16S02 | - | 16S ribosomal RNA |

184777 | 184853 | + | 77 | 110636427 | CHU_tIle01 | - | 14 Ile tRNA
|

184945 | 185021 | + | 77 | 110636427 | CHU_tAla02 | - | 02 Ala tRNA
|

185312 | 187821 | + | 2510 | 110636427 | CHU_r23S02 | - | 23S ribosomal RNA |

188165 | 188201 | + | 37 | 110636427 | CHU_r5S02 | - | 5S ribosomal RNA |

256242 | 256322 | + | 81 | 110636427 | CHU_tVal01 | - | 13 Val tRNA
|

724579 | 724658 | + | 80 | 110636427 | CHU_tArg01 | - | 11 Arg tRNA
|

1040456 | 1040532 | - | 77 | 110636427 | CHU_tMet01 | - | 16 Met tRNA
|

1157965 | 1158044 | + | 80 | 110636427 | CHU_tHis01 | - | 09 His tRNA
|

1210249 | 1210336 | + | 88 | 110636427 | CHU_tSer01 | - | 08 Ser tRNA
|

1751703 | 1751779 | - | 77 | 110636427 | CHU_tAsp01 | - | 06 Asp tRNA
|

1932378 | 1932457 | - | 80 | 110636427 | CHU_tMet02 | - | 16 Met tRNA
|

1973455 | 1973533 | + | 79 | 110636427 | CHU_tThr01 | - | 12 Thr tRNA
|

1973775 | 1973850 | + | 76 | 110636427 | CHU_tThr02 | - | 12 Thr tRNA
|

1993798 | 1993834 | - | 37 | 110636427 | CHU_r5S03 | - | 5S ribosomal RNA |

1994178 | 1996687 | - | 2510 | 110636427 | CHU_r23S03 | - | 23S ribosomal RNA |

1997115 | 1998496 | - | 1382 | 110636427 | CHU_r16S03 | - | 16S ribosomal RNA |

2005947 | 2006031 | + | 85 | 110636427 | CHU_tLeu02 | - | 15 Leu tRNA
|

2239147 | 2239224 | - | 78 | 110636427 | CHU_tPro01 | - | 03 Pro tRNA
|

2239296 | 2239372 | - | 77 | 110636427 | CHU_tArg02 | - | 11 Arg tRNA
|

2239455 | 2239532 | - | 78 | 110636427 | CHU_tPro02 | - | 03 Pro tRNA
|

2239626 | 2239717 | - | 92 | 110636427 | CHU_tSer02 | - | 08 Ser tRNA
|

2278047 | 2278120 | - | 74 | 110636427 | CHU_tCys01 | - | 19 Cys tRNA
|

2526598 | 2526690 | - | 93 | 110636427 | CHU_tSer03 | - | 08 Ser tRNA
|

2611557 | 2611631 | + | 75 | 110636427 | CHU_tArg03 | - | 11 Arg tRNA
|

3008953 | 3009031 | - | 79 | 110636427 | CHU_tGln01 | - | 05 Gln tRNA
|

3197420 | 3197506 | - | 87 | 110636427 | CHU_tLeu03 | - | 15 Leu tRNA
|

3198774 | 3198849 | - | 76 | 110636427 | CHU_tLys01 | - | 10 Lys tRNA
|

3199734 | 3199809 | - | 76 | 110636427 | CHU_tLys02 | - | 10 Lys tRNA
|

3325653 | 3325731 | - | 79 | 110636427 | CHU_tPhe02 | - | 17 Phe tRNA
|

3325763 | 3325851 | - | 89 | 110636427 | CHU_tPseudo01 | - | Xaa tRNA |

3400034 | 3400118 | - | 85 | 110636427 | CHU_tLeu04 | - | 15 Leu tRNA
|

3422770 | 3422847 | - | 78 | 110636427 | CHU_tGlu01 | - | 04 Glu tRNA
|

3422949 | 3423026 | - | 78 | 110636427 | CHU_tGlu02 | - | 04 Glu tRNA
|

3614058 | 3614131 | - | 74 | 110636427 | CHU_tTrp01 | - | 20 Trp tRNA
|

3615488 | 3615566 | - | 79 | 110636427 | CHU_tThr03 | - | 12 Thr tRNA
|

3615577 | 3615655 | - | 79 | 110636427 | CHU_tGly02 | - | 01 Gly tRNA
|

3615732 | 3615820 | - | 89 | 110636427 | CHU_tTyr01 | - | 18 Tyr tRNA
|

3836007 | 3836085 | - | 79 | 110636427 | CHU_tMet03 | - | 16 Met tRNA
|

4426462 | 4426539 | - | 78 | 110636427 | CHU_tArg04 | - | 11 Arg tRNA
|