ФЭНДОМ


   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 Править

Начало Конец Направление Длина PID Ген COG Комментарий
1316 1393 + 78 113460149 HS_tPseudo01 - Xaa tRNA
1397 1475 + 79 113460149 HS_tAsn03 - 07</sub> Asn tRNA
177054 177132 - 79 113460149 HS_tThr01 - 12</sub> Thr tRNA
177133 177210 - 78 113460149 HS_tGly01 - 01</sub> Gly tRNA
177250 177337 - 88 113460149 HS_tTyr01 - 18</sub> Tyr tRNA
177366 177444 - 79 113460149 HS_tThr02 - 12</sub> Thr tRNA
261158 261236 + 79 113460149 HS_tLys01 - 10</sub> Lys tRNA
261259 261337 + 79 113460149 HS_tLys03 - 10</sub> Lys tRNA
261360 261438 + 79 113460149 HS_tLys02 - 10</sub> Lys tRNA
327339 327431 + 93 113460149 HS_tSer03 - 08</sub> Ser tRNA
486229 486307 - 79 113460149 HS_tAla03 - 02</sub> Ala tRNA
488009 488087 + 79 113460149 HS_tVal04 - 13</sub> Val tRNA
488125 488203 + 79 113460149 HS_tVal01 - 13</sub> Val tRNA
488262 488340 + 79 113460149 HS_tVal02 - 13</sub> Val tRNA
561972 562061 + 90 113460149 HS_tLeu01 - 15</sub> Leu tRNA
646388 646467 - 80 113460149 HS_tAsp02 - 06</sub> Asp tRNA
646493 646572 - 80 113460149 HS_tAsp03 - 06</sub> Asp tRNA
766890 766969 - 80 113460149 HS_tMet02 - 16</sub> Met tRNA
772258 772354 + 97 113460149 HS_tSer02 - 08</sub> Ser tRNA
772362 772441 + 80 113460149 HS_tArg02 - 11</sub> Arg tRNA
772515 772594 + 80 113460149 HS_tArg03 - 11</sub> Arg tRNA
893293 893372 + 80 113460149 HS_tMet01 - 16</sub> Met tRNA
1124187 1124264 - 78 113460149 HS_tGln01 - 05</sub> Gln tRNA
1124308 1124385 - 78 113460149 HS_tGln02 - 05</sub> Gln tRNA
1124410 1124497 - 88 113460149 HS_tLeu03 - 15</sub> Leu tRNA
1124500 1124579 - 80 113460149 HS_tMet03 - 16</sub> Met tRNA
1195424 1195502 + 79 113460149 HS_tAsn02 - 07</sub> Asn tRNA
1234438 1234516 + 79 113460149 HS_tGly03 - 01</sub> Gly tRNA
1381469 1381548 - 80 113460149 HS_tArg04 - 11</sub> Arg tRNA
1381572 1381651 - 80 113460149 HS_tPro02 - 03</sub> Pro tRNA
1389530 1389609 - 80 113460149 HS_tVal03 - 13</sub> 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</sub> Glu tRNA
1393294 1394776 - 1483 113460149 HS_r16S02 - 16S ribosomal RNA
1394930 1395009 - 80 113460149 HS_tPro01 - 03</sub> Pro tRNA
1395013 1395091 - 79 113460149 HS_tHis01 - 09</sub> His tRNA
1395110 1395189 - 80 113460149 HS_tArg01 - 11</sub> Arg tRNA
1501839 1501927 + 89 113460149 HS_tLeu04 - 15</sub> Leu tRNA
1538413 1538491 + 79 113460149 HS_tGly02 - 01</sub> Gly tRNA
1538500 1538576 + 77 113460149 HS_tCys01 - 19</sub> Cys tRNA
1538598 1538687 + 90 113460149 HS_tLeu02 - 15</sub> Leu tRNA
1610992 1611084 - 93 113460149 HS_tSer01 - 08</sub> 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</sub> Ala tRNA
1643882 1643961 - 80 113460149 HS_tIle01 - 14</sub> 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</sub> Glu tRNA
1719543 1721025 - 1483 113460149 HS_r16S01 - 16S ribosomal RNA
1774346 1774424 - 79 113460149 HS_tTrp01 - 20</sub> Trp tRNA
1774436 1774515 - 80 113460149 HS_tAsp01 - 06</sub> 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</sub> 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</sub> Ile tRNA
1944327 1944405 + 79 113460149 HS_tAla02 - 02</sub> 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</sub> Phe tRNA
1952251 1952329 + 79 113460149 HS_tAsn01 - 07</sub> Asn tRNA