Материалы:NC 009092

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Эта статья — часть материалов: лаборатории Биоинформатика, исследовательского проекта «Геном прокариот»

   LOCUS       NC_009092            4602594 bp    DNA     circular BCT 14-AUG-2007
   DEFINITION  Shewanella loihica PV-4, complete genome.
   ACCESSION   NC_009092
   VERSION     NC_009092.1  GI:127510935
   KEYWORDS    .
   SOURCE      Shewanella loihica PV-4
     ORGANISM  Shewanella loihica PV-4
               Bacteria; Proteobacteria; Gammaproteobacteria; Alteromonadales;
               Shewanellaceae; Shewanella.
   REFERENCE   1  (bases 1 to 4602594)
     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.,
               Chain,P., Malfatti,S., Shin,M., Vergez,L., Schmutz,J., Larimer,F.,
               Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Romine,M.F.,
               Serres,G., Fredrickson,J., Tiedje,J. and Richardson,P.
     CONSRTM   US DOE Joint Genome Institute
     TITLE     Complete sequence of Shewanella loihica PV-4
     JOURNAL   Unpublished
   REFERENCE   2  (bases 1 to 4602594)
     CONSRTM   NCBI Genome Project
     TITLE     Direct Submission
     JOURNAL   Submitted (09-MAR-2007) National Center for Biotechnology
               Information, NIH, Bethesda, MD 20894, USA
   REFERENCE   3  (bases 1 to 4602594)
     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.,
               Chain,P., Malfatti,S., Shin,M., Vergez,L., Schmutz,J., Larimer,F.,
               Land,M., Hauser,L., Kyrpides,N., Mikhailova,N., Romine,M.F.,
               Serres,G., Fredrickson,J., Tiedje,J. and Richardson,P.
     CONSRTM   US DOE Joint Genome Institute
     TITLE     Direct Submission
     JOURNAL   Submitted (05-MAR-2007) 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 CP000606.
               URL -- http://www.jgi.doe.gov
               JGI Project ID: 3634499
               Source DNA and bacteria available from Jim Fredrickson
               (Jim.fredrickson@pnl.gov)
               Contacts: Shewanella Federation (shewanella.org)
                         James Tiedje (tiedjej@msu.edu)
                         Jim Fredrickson (Jim.fredrickson@pnl.gov)
                         Paul Richardson (microbes@cuba.jgi-psf.org)
               Quality assurance done by JGI-Stanford
               Annotation done by JGI-ORNL and JGI-PGF
               Finishing done by JGI-LLNL
               Finished microbial genomes have been curated to close all gaps with
               greater than 98% coverage of at least two independent clones. Each
               base pair has a minimum q (quality) value of 30 and the total error
               rate is less than one per 50000.
               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)
               Additional Notes:There is one region (190008-190149) of the genome
               that was covered only by reads from the 454 sequencing machine.
               COMPLETENESS: full length.

Расположение РНК[править]

Начало	Конец	Направление	Длина	PID	Ген	COG	Комментарий
151087	152641	+	1555	127510935	Shew_R0001	-	16S ribosomal RNA
152699	152775	+	77	127510935	Shew_R0002	-	^{14 Ile tRNA}
152828	152903	+	76	127510935	Shew_R0003	-	^{02 Ala tRNA}
153149	156041	+	2893	127510935	Shew_R0004	-	23S ribosomal RNA
156162	156282	+	121	127510935	Shew_R0005	-	5S ribosomal RNA
160440	160515	+	76	127510935	Shew_R0006	-	^{12 Thr tRNA}
160523	160607	+	85	127510935	Shew_R0007	-	^{18 Tyr tRNA}
160644	160717	+	74	127510935	Shew_R0008	-	^{01 Gly tRNA}
203400	204956	+	1557	127510935	Shew_R0009	-	16S ribosomal RNA
205195	208087	+	2893	127510935	Shew_R0010	-	23S ribosomal RNA
208189	208309	+	121	127510935	Shew_R0011	-	5S ribosomal RNA
208343	208419	+	77	127510935	Shew_R0012	-	^{06 Asp tRNA}
242495	242800	+	306	127510935	Shew_R0013	-	RNA component of RNaseP
331983	332059	+	77	127510935	Shew_R0014	-	^{11 Arg tRNA}
332103	332178	+	76	127510935	Shew_R0015	-	^{09 His tRNA}
332263	332339	+	77	127510935	Shew_R0016	-	^{03 Pro tRNA}
332392	332468	+	77	127510935	Shew_R0017	-	^{03 Pro tRNA}
413069	413159	+	91	127510935	Shew_R0018	-	^{08 Ser tRNA}
633941	634016	+	76	127510935	Shew_R0019	-	^{01 Gly tRNA}
634062	634137	+	76	127510935	Shew_R0020	-	^{01 Gly tRNA}
634145	634220	+	76	127510935	Shew_R0021	-	^{01 Gly tRNA}
634229	634304	+	76	127510935	Shew_R0022	-	^{01 Gly tRNA}
1153125	1153201	-	77	127510935	Shew_R0023	-	^{16 Met tRNA}
1296009	1296084	-	76	127510935	Shew_R0024	-	^{12 Thr tRNA}
1296092	1296167	-	76	127510935	Shew_R0025	-	^{17 Phe tRNA}
1416121	1416212	+	92	127510935	Shew_R0026	-	^{08 Ser tRNA}
1416234	1416310	+	77	127510935	Shew_R0027	-	^{11 Arg tRNA}
1416348	1416424	+	77	127510935	Shew_R0028	-	^{11 Arg tRNA}
1416450	1416526	+	77	127510935	Shew_R0029	-	^{11 Arg tRNA}
1416580	1416656	+	77	127510935	Shew_R0030	-	^{11 Arg tRNA}
1416665	1416756	+	92	127510935	Shew_R0031	-	^{08 Ser tRNA}
1466990	1467345	-	356	127510935	Shew_R0032	-	tmRNA
1547952	1548027	-	76	127510935	Shew_R0033	-	^{11 Arg tRNA}
1665747	1665822	-	76	127510935	Shew_R0034	-	^{13 Val tRNA}
1665861	1665936	-	76	127510935	Shew_R0035	-	^{13 Val tRNA}
1665974	1666049	-	76	127510935	Shew_R0036	-	^{13 Val tRNA}
1666088	1666163	-	76	127510935	Shew_R0037	-	^{13 Val tRNA}
1666223	1666298	-	76	127510935	Shew_R0038	-	^{13 Val tRNA}
1666333	1666408	-	76	127510935	Shew_R0039	-	^{13 Val tRNA}
1668903	1668978	+	76	127510935	Shew_R0040	-	^{02 Ala tRNA}
1669059	1669134	+	76	127510935	Shew_R0041	-	^{04 Glu tRNA}
1669242	1669317	+	76	127510935	Shew_R0042	-	^{04 Glu tRNA}
1669425	1669500	+	76	127510935	Shew_R0043	-	^{04 Glu tRNA}
1669608	1669683	+	76	127510935	Shew_R0044	-	^{04 Glu tRNA}
1669791	1669866	+	76	127510935	Shew_R0045	-	^{04 Glu tRNA}
1669974	1670049	+	76	127510935	Shew_R0046	-	^{04 Glu tRNA}
1670171	1670246	+	76	127510935	Shew_R0047	-	^{04 Glu tRNA}
1670321	1670396	+	76	127510935	Shew_R0048	-	^{02 Ala tRNA}
1695147	1695223	-	77	127510935	Shew_R0049	-	^{03 Pro tRNA}
1752885	1752960	+	76	127510935	Shew_R0050	-	^{10 Lys tRNA}
1752999	1753074	+	76	127510935	Shew_R0051	-	^{10 Lys tRNA}
1753113	1753188	+	76	127510935	Shew_R0052	-	^{10 Lys tRNA}
1753363	1753438	+	76	127510935	Shew_R0053	-	^{10 Lys tRNA}
1753613	1753688	+	76	127510935	Shew_R0054	-	^{10 Lys tRNA}
1753864	1753939	+	76	127510935	Shew_R0055	-	^{10 Lys tRNA}
1753979	1754054	+	76	127510935	Shew_R0056	-	^{10 Lys tRNA}
2082317	2082393	-	77	127510935	Shew_R0057	-	^{16 Met tRNA}
2082440	2082516	-	77	127510935	Shew_R0058	-	^{16 Met tRNA}
2082564	2082640	-	77	127510935	Shew_R0059	-	^{16 Met tRNA}
2082688	2082764	-	77	127510935	Shew_R0060	-	^{16 Met tRNA}
2102518	2102593	+	76	127510935	Shew_R0061	-	^{01 Gly tRNA}
2102606	2102679	+	74	127510935	Shew_R0062	-	^{19 Cys tRNA}
2102719	2102805	+	87	127510935	Shew_R0063	-	^{15 Leu tRNA}
2229890	2229977	+	88	127510935	Shew_R0064	-	^{08 Ser tRNA}
2311927	2312013	-	87	127510935	Shew_R0065	-	^{15 Leu tRNA}
2312052	2312125	-	74	127510935	Shew_R0066	-	^{19 Cys tRNA}
2312161	2312236	-	76	127510935	Shew_R0067	-	^{01 Gly tRNA}
2327622	2327712	-	91	127510935	Shew_R0068	-	^{08 Ser tRNA}
2350595	2350671	+	77	127510935	Shew_R0069	-	^{13 Val tRNA}
2350692	2350768	+	77	127510935	Shew_R0070	-	^{13 Val tRNA}
2378777	2378861	+	85	127510935	Shew_R0071	-	^{18 Tyr tRNA}
2378893	2378977	+	85	127510935	Shew_R0072	-	^{18 Tyr tRNA}
2379018	2379102	+	85	127510935	Shew_R0073	-	^{18 Tyr tRNA}
2385603	2385678	+	76	127510935	Shew_R0074	-	^{07 Asn tRNA}
2385721	2385796	+	76	127510935	Shew_R0075	-	^{07 Asn tRNA}
2385823	2385898	+	76	127510935	Shew_R0076	-	^{07 Asn tRNA}
2385923	2385998	+	76	127510935	Shew_R0077	-	^{07 Asn tRNA}
2445114	2445202	-	89	127510935	Shew_R0078	-	Xaa tRNA
2445296	2445372	-	77	127510935	Shew_R0079	-	^{06 Asp tRNA}
2445422	2445498	-	77	127510935	Shew_R0080	-	^{06 Asp tRNA}
2751361	2751492	-	132	127510935	Shew_R0081	-	5S ribosomal RNA
2751726	2754618	-	2893	127510935	Shew_R0082	-	23S ribosomal RNA
2754864	2754939	-	76	127510935	Shew_R0083	-	^{02 Ala tRNA}
2755054	2755130	-	77	127510935	Shew_R0084	-	^{14 Ile tRNA}
2755324	2756880	-	1557	127510935	Shew_R0085	-	16S ribosomal RNA
2928131	2928247	-	117	127510935	Shew_R0086	-	SRP RNA; RNA component of signal recognition particle
2953121	2953196	-	76	127510935	Shew_R0087	-	^{09 His tRNA}
2953205	2953281	-	77	127510935	Shew_R0088	-	^{11 Arg tRNA}
2953345	2953421	-	77	127510935	Shew_R0089	-	^{03 Pro tRNA}
3110419	3110571	-	153	127510935	Shew_R0090	-
3354950	3355026	-	77	127510935	Shew_R0091	-	^{16 Met tRNA}
3355130	3355215	-	86	127510935	Shew_R0092	-	^{15 Leu tRNA}
3456504	3456588	-	85	127510935	Shew_R0093	-	^{15 Leu tRNA}
3456643	3456717	-	75	127510935	Shew_R0094	-	^{05 Gln tRNA}
3456763	3456847	-	85	127510935	Shew_R0095	-	^{15 Leu tRNA}
3456980	3457056	-	77	127510935	Shew_R0096	-	^{16 Met tRNA}
3457077	3457151	-	75	127510935	Shew_R0097	-	^{05 Gln tRNA}
3457177	3457251	-	75	127510935	Shew_R0098	-	^{05 Gln tRNA}
3457300	3457384	-	85	127510935	Shew_R0099	-	^{15 Leu tRNA}
3457454	3457530	-	77	127510935	Shew_R0100	-	^{16 Met tRNA}
3483012	3483088	-	77	127510935	Shew_R0101	-	^{20 Trp tRNA}
3484324	3484444	-	121	127510935	Shew_R0102	-	5S ribosomal RNA
3484613	3487505	-	2893	127510935	Shew_R0103	-	23S ribosomal RNA
3487746	3489302	-	1557	127510935	Shew_R0104	-	16S ribosomal RNA
3497824	3497899	+	76	127510935	Shew_R0105	-	^{17 Phe tRNA}
3884270	3884356	-	87	127510935	Shew_R0107	-	^{15 Leu tRNA}
3884408	3884492	-	85	127510935	Shew_R0108	-	^{15 Leu tRNA}
4112264	4112384	-	121	127510935	Shew_R0109	-	5S ribosomal RNA
4112494	4115386	-	2893	127510935	Shew_R0110	-	23S ribosomal RNA
4115627	4117183	-	1557	127510935	Shew_R0111	-	16S ribosomal RNA
4118817	4118937	-	121	127510935	Shew_R0112	-	5S ribosomal RNA
4118943	4119018	-	76	127510935	Shew_R0113	-	^{12 Thr tRNA}
4119098	4119229	-	132	127510935	Shew_R0114	-	5S ribosomal RNA
4119331	4122223	-	2893	127510935	Shew_R0115	-	23S ribosomal RNA
4122468	4122543	-	76	127510935	Shew_R0116	-	^{02 Ala tRNA}
4122658	4122734	-	77	127510935	Shew_R0117	-	^{14 Ile tRNA}
4122843	4124399	-	1557	127510935	Shew_R0118	-	16S ribosomal RNA
4434579	4434655	-	77	127510935	Shew_R0119	-	^{06 Asp tRNA}
4434691	4434811	-	121	127510935	Shew_R0120	-	5S ribosomal RNA
4434911	4437803	-	2893	127510935	Shew_R0121	-	23S ribosomal RNA
4438044	4439600	-	1557	127510935	Shew_R0122	-	16S ribosomal RNA
4535054	4535174	-	121	127510935	Shew_R0123	-	5S ribosomal RNA
4535274	4538166	-	2893	127510935	Shew_R0124	-	23S ribosomal RNA
4538407	4539962	-	1556	127510935	Shew_R0125	-	16S ribosomal RNA