Материалы:NC 000913

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   LOCUS       NC_000913            4639675 bp    DNA     circular BCT 01-MAY-2007
   DEFINITION  Escherichia coli K12, complete genome.
   ACCESSION   NC_000913
   VERSION     NC_000913.2  GI:49175990
   KEYWORDS    .
   SOURCE      Escherichia coli K12
     ORGANISM  Escherichia coli K12
               Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales;
               Enterobacteriaceae; Escherichia.
   REFERENCE   1  (bases 1 to 4639675)
     AUTHORS   Riley,M., Abe,T., Arnaud,M.B., Berlyn,M.K., Blattner,F.R.,
               Chaudhuri,R.R., Glasner,J.D., Horiuchi,T., Keseler,I.M., Kosuge,T.,
               Mori,H., Perna,N.T., Plunkett,G. III, Rudd,K.E., Serres,M.H.,
               Thomas,G.H., Thomson,N.R., Wishart,D. and Wanner,B.L.
     TITLE     Escherichia coli K-12: a cooperatively developed annotation
               snapshot--2005
     JOURNAL   (er) Nucleic Acids Res. 34 (1), 1-9 (2006)
      PUBMED   16397293
   REFERENCE   2  (bases 1 to 4639675)
     AUTHORS   Blattner,F.R., Plunkett,G., Bloch,C.A., Perna,N.T., Burland,V.,
               Riley,M., Collado-Vides,J., Glasner,J.D., Rode,C.K., Mayhew,G.F.,
               Gregor,J., Davis,N.W., Kirkpatrick,H.A., Goeden,M.A., Rose,D.J.,
               Mau,B. and Shao,Y.
     TITLE     The complete genome sequence of Escherichia coli K-12
     JOURNAL   Science 277 (5331), 1453-1474 (1997)
      PUBMED   9278503
   REFERENCE   3  (bases 1 to 4639675)
     AUTHORS   Arnaud,M., Berlyn,M.K.B., Blattner,F.R., Galperin,M.Y.,
               Glasner,J.D., Horiuchi,T., Kosuge,T., Mori,H., Perna,N.T.,
               Plunkett,G. III, Riley,M., Rudd,K.E., Serres,M.H., Thomas,G.H. and
               Wanner,B.L.
     TITLE     Workshop on Annotation of Escherichia coli K-12
     JOURNAL   Unpublished
     REMARK    Woods Hole, Mass., on 14-18 November 2003 (sequence corrections)
   REFERENCE   4  (bases 1 to 4639675)
     AUTHORS   Glasner,J.D., Perna,N.T., Plunkett,G. III, Anderson,B.D.,
               Bockhorst,J., Hu,J.C., Riley,M., Rudd,K.E. and Serres,M.H.
     TITLE     ASAP: Escherichia coli K-12 strain MG1655 version m56
     JOURNAL   Unpublished
     REMARK    ASAP download 10 June 2004 (annotation updates)
   REFERENCE   5  (bases 1 to 4639675)
     AUTHORS   Hayashi,K., Morooka,N., Mori,H. and Horiuchi,T.
     TITLE     A more accurate sequence comparison between genomes of Escherichia
               coli K12 W3110 and MG1655 strains
     JOURNAL   Unpublished
     REMARK    GenBank accessions AG613214 to AG613378 (sequence corrections)
   REFERENCE   6  (bases 1 to 4639675)
     AUTHORS   Perna,N.T.
     TITLE     Escherichia coli K-12 MG1655 yqiK-rfaE intergenic region, genomic
               sequence correction
     JOURNAL   Unpublished
     REMARK    GenBank accession AY605712 (sequence corrections)
   REFERENCE   7  (bases 1 to 4639675)
     AUTHORS   Rudd,K.E.
     TITLE     A manual approach to accurate translation start site annotation: an
               E. coli K-12 case study
     JOURNAL   Unpublished
   REFERENCE   8  (bases 1 to 4639675)
     CONSRTM   NCBI Genome Project
     TITLE     Direct Submission
     JOURNAL   Submitted (24-APR-2007) National Center for Biotechnology
               Information, NIH, Bethesda, MD 20894, USA
   REFERENCE   9  (bases 1 to 4639675)
     AUTHORS   Plunkett,G. III.
     TITLE     Direct Submission
     JOURNAL   Submitted (24-APR-2007) Laboratory of Genetics, University of
               Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
     REMARK    Annotation update
   REFERENCE   10 (bases 1 to 4639675)
     AUTHORS   Plunkett,G. III.
     TITLE     Direct Submission
     JOURNAL   Submitted (07-FEB-2006) Laboratory of Genetics, University of
               Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
     REMARK    Protein updates by submitter
   REFERENCE   11 (bases 1 to 4639675)
     AUTHORS   Plunkett,G. III.
     TITLE     Direct Submission
     JOURNAL   Submitted (10-JUN-2004) Laboratory of Genetics, University of
               Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
     REMARK    Sequence update by submitter
   REFERENCE   12 (bases 1 to 4639675)
     AUTHORS   Plunkett,G. III.
     TITLE     Direct Submission
     JOURNAL   Submitted (13-OCT-1998) Laboratory of Genetics, University of
               Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
   REFERENCE   13 (bases 1 to 4639675)
     AUTHORS   Blattner,F.R. and Plunkett,G. III.
     TITLE     Direct Submission
     JOURNAL   Submitted (02-SEP-1997) Laboratory of Genetics, University of
               Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
   REFERENCE   14 (bases 1 to 4639675)
     AUTHORS   Blattner,F.R. and Plunkett,G. III.
     TITLE     Direct Submission
     JOURNAL   Submitted (16-JAN-1997) Laboratory of Genetics, University of
               Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
   COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
               NCBI review. The reference sequence was derived from U00096.
               On Jun 24, 2004 this sequence version replaced gi:16127994.
               U00096 is being updated as a collaboration among ASAP (contact: Dr.
               Guy Plunkett III, guy@genome.wisc.edu), EcoGene (contact: Dr.
               Kenneth Rudd, ecogene@med.miami.edu) and the Coli Genetic Stock
               Center (contact: Dr. Mary Berlyn, mary.berlyn@yale.edu).
               COMPLETENESS: full length.

Расположение РНК

Начало	Конец	Направление	Длина	PID	Ген	COG	Комментарий
16952	17006	+	55	49175990	b4413	-	Antisense sRNA blocking mokC, and hence hokC, translation; IS186A interrupts hokC transcript downstream of hokC gene in K-12
77367	77593	+	227	49175990	b4577	-	sRNA that destabilzes ptsG mRNA; regulated by sgrR
189712	189847	+	136	49175990	b4414	-	Novel sRNA, function unknown
223771	225312	+	1542	49175990	b0201	-	16S ribosomal RNA of rrnH operon
225381	225457	+	77	49175990	b0202	-	^{14 Ile tRNA}
225500	225575	+	76	49175990	b0203	-	^{02 Ala tRNA}
225759	228662	+	2904	49175990	b0204	-	23S ribosomal RNA of rrnH operon
228756	228875	+	120	49175990	b0205	-	5S ribosomal RNA of rrnH operon
228928	229004	+	77	49175990	b0206	-	^{06 Asp tRNA}
236931	237007	+	77	49175990	b0216	-	^{06 Asp tRNA}
262095	262170	+	76	49175990	b0244	-	^{12 Thr tRNA}
475672	475785	+	114	49175990	b0455	-	4.5S sRNA component of Signal Recognition Particle (SRP); works with the Ffh protein; involved in co-translational protein translocation into and possibly through membranes
506428	506509	+	82	49175990	b4585	-	Novel sRNA, function unknown
563946	564022	+	77	49175990	b0536	-	^{11 Arg tRNA}
695653	695727	-	75	49175990	b0664	-	^{05 Gln tRNA}
695765	695839	-	75	49175990	b0665	-	^{05 Gln tRNA}
695887	695963	-	77	49175990	b0666	-	^{16 Met tRNA}
695979	696053	-	75	49175990	b0668	-	^{05 Gln tRNA}
696088	696162	-	75	49175990	b0670	-	^{05 Gln tRNA}
696186	696270	-	85	49175990	b0672	-	^{15 Leu tRNA}
696280	696356	-	77	49175990	b0673	-	^{16 Met tRNA}
779777	779852	+	76	49175990	b0743	-	^{10 Lys tRNA}
779988	780063	+	76	49175990	b0744	-	^{13 Val tRNA}
780066	780141	+	76	49175990	b0745	-	^{10 Lys tRNA}
780291	780366	+	76	49175990	b0746	-	^{13 Val tRNA}
780370	780445	+	76	49175990	b0747	-	^{10 Lys tRNA}
780592	780667	+	76	49175990	b0748	-	^{10 Lys tRNA}
780800	780875	+	76	49175990	b0749	-	^{10 Lys tRNA}
852175	852263	-	89	49175990	b4416	-	Novel sRNA, function unknown
887199	887277	-	79	49175990	b4417	-	sRNA effector of ompC and ompW mRNA instability; requires Hfq
925107	925194	-	88	49175990	b0883	-	^{08 Ser tRNA}
1030848	1030935	-	88	49175990	b0971	-	^{08 Ser tRNA}
1096788	1096875	-	88	49175990	b1032	-	^{08 Ser tRNA}
1145812	1145980	+	169	49175990	b4418	-	Novel sRNA, function unknown
1268546	1268612	+	67	49175990	b4420	-	Antisense sRNA RdlA affects LdrA translation; proposed addiction module in LDR-A repeat, with toxic peptide LdrA
1269081	1269146	+	66	49175990	b4422	-	Antisense sRNA RdlB affects LdrB translation; proposed addiction module in LDR-B repeat, with toxic peptide LdrB
1269616	1269683	+	68	49175990	b4424	-	Antisense sRNA RdlC affects LdrC translation; proposed addiction module in LDR-C repeat, with toxic peptide LdrC
1286289	1286459	-	171	49175990	b4425	-	rtT sRNA, processed from tyrT transcript; encodes putative Tpr protein; RNA itself may modulate the stringent response
1286467	1286551	-	85	49175990	b1230	-	^{18 Tyr tRNA}
1286761	1286845	-	85	49175990	b1231	-	^{18 Tyr tRNA}
1403676	1403833	-	158	49175990	b4426	-	Novel sRNA, function unknown
1435145	1435253	+	109	49175990	b4427	-	MicC sRNA regulator of OmpC translation
1489467	1489530	-	64	49175990	b4597	-	sRNA regulator of yejABEF; over-expression causes a thermosensitive growth phenotype on minimal glycerol, maltose, or ribose media
1490143	1490198	+	56	49175990	b4429	-	Antisense sRNA blocking mokB, and hence hokB, translation
1647406	1647458	+	53	49175990	b1574	-	DicF antisense sRNA, inhibits ftsZ, Qin prophage
1744459	1744535	+	77	49175990	b1665	-	^{13 Val tRNA}
1744540	1744616	+	77	49175990	b1666	-	^{13 Val tRNA}
1762737	1762804	-	68	49175990	b4430	-	Novel sRNA, function unknown
1768396	1768501	+	106	49175990	b4431	-	Positive regulatory sRNA for RpoS translation; non-essential gene
1921090	1921338	+	249	49175990	b4432	-	Novel sRNA, function unknown
1921188	1921308	-	121	49175990	b4433	-	Novel sRNA, function unknown
1985863	1986022	-	160	49175990	b4434	-	Novel sRNA, function unknown
1989839	1989925	-	87	49175990	b1909	-	^{15 Leu tRNA}
1989938	1990011	-	74	49175990	b1910	-	^{19 Cys tRNA}
1990066	1990141	-	76	49175990	b1911	-	^{01 Gly tRNA}
2023251	2023337	-	87	49175990	b1954	-	Regulatory sRNA enhances translation of RpoS; component of acid resistance regulatory circuit; also antagonist of H-NS function by decreasing H-NS levels
2031673	2031763	+	91	49175990	b4603	-	sRNA regulating ompA and ompC translation, with Hfq
2041492	2041581	-	90	49175990	b1975	-	^{08 Ser tRNA}
2042573	2042648	+	76	49175990	b1977	-	^{07 Asn tRNA}
2056051	2056126	-	76	49175990	b1984	-	^{07 Asn tRNA}
2057875	2057950	+	76	49175990	b1986	-	^{07 Asn tRNA}
2060284	2060359	+	76	49175990	b1989	-	^{07 Asn tRNA}
2069339	2069542	+	204	49175990	b4435	-	Novel sRNA, function unknown, CP4-44; putative prophage remnant
2151333	2151475	+	143	49175990	b4436	-	Novel sRNA, function unknown; paralogous to the other QUAD sRNA genes unknown
2151668	2151803	+	136	49175990	b4437	-	Novel sRNA, function unknown; paralogous to the other QUAD sRNA genes
2165136	2165221	+	86	49175990	b4438	-	Novel sRNA, function unknown
2284233	2284309	+	77	49175990	b2189	-	^{03 Pro tRNA}
2311106	2311198	+	93	49175990	b4439	-	Regulatory antisense sRNA affecting ompF expression; member of soxRS regulon
2464331	2464405	+	75	49175990	b2348	-	^{11 Arg tRNA}
2516063	2516138	-	76	49175990	b2396	-	^{02 Ala tRNA}
2516178	2516253	-	76	49175990	b2397	-	^{02 Ala tRNA}
2518953	2519028	+	76	49175990	b2401	-	^{13 Val tRNA}
2519073	2519148	+	76	49175990	b2402	-	^{13 Val tRNA}
2519195	2519270	+	76	49175990	b2403	-	^{13 Val tRNA}
2519275	2519350	+	76	49175990	b2404	-	^{10 Lys tRNA}
2651877	2652180	+	304	49175990	b4440	-	Novel sRNA, function unknown
2689182	2689362	-	181	49175990	b4441	-	Novel sRNA, function unknown
2698081	2698399	-	319	49175990	b4607	-	Novel sRNA, function unknown
2698542	2698618	-	77	49175990	b4608	-	Novel sRNA, function unknown
2724091	2724210	-	120	49175990	b2588	-	5S ribosomal RNA of rrnG operon
2724303	2727206	-	2904	49175990	b2589	-	23S ribosomal RNA of rrnG operon
2727391	2727466	-	76	49175990	b2590	-	^{04 Glu tRNA}
2727638	2729179	-	1542	49175990	b2591	-	16S ribosomal RNA of rrnG operon
2732175	2732317	-	143	49175990	b4609	-	Novel sRNA, function unknown
2753615	2753977	+	363	49175990	b2621	-	tmRNA, 10Sa RNA; acts as tRNA-Ala and mRNA template for tagging proteins resulting from premature transcription termination, a process known as trans-translation
2783784	2783859	-	76	49175990	b2652	-	^{14 Ile tRNA}
2812824	2812901	+	78	49175990	b4442	-	sRNA effector of ompA mRNA instability in stationary phase; requires Hfq
2815806	2815882	-	77	49175990	b2691	-	^{11 Arg tRNA}
2816081	2816157	-	77	49175990	b2692	-	^{11 Arg tRNA}
2816220	2816296	-	77	49175990	b2693	-	^{11 Arg tRNA}
2816495	2816571	-	77	49175990	b2694	-	^{11 Arg tRNA}
2816575	2816667	-	93	49175990	b2695	-	^{08 Ser tRNA}
2922178	2922537	-	360	49175990	b4408	-	CsrA-binding sRNA, antagonizing CsrA regulation; blocks the CsrA binding of glgC mRNA
2940718	2940923	+	206	49175990	b4443	-	GcvB sRNA gene divergent from gcvA; represses oppA, dppA, gltI and livJ expression; regulated by gcvA and gcvR; this is gcvB-L, terminated at T2, 90% of gcvB RNA is from gcvB-S, encoding a 134 nt RNA terminating at T1
2945409	2945485	+	77	49175990	b2814	-	^{16 Met tRNA}
2945519	2945595	+	77	49175990	b2815	-	^{16 Met tRNA}
2945629	2945705	+	77	49175990	b2816	-	^{16 Met tRNA}
2974124	2974211	-	88	49175990	b4444	-	sRNA down regulates OM proteins; positively regulated by OmpR/EnvZ; binds Hfq
2974332	2974407	-	76	49175990	b4445	-	sRNA down regulates OM proteins; positively regulated by OmpR/EnvZ; binds Hfq
2997006	2997079	-	74	49175990	b2864	-	^{01 Gly tRNA}
3054005	3054187	+	183	49175990	b2911	-	6S sRNA inhibits RNA polymerase promoter binding; template for RNA-directed pRNA synthesis by RNAP; mimics an open promoter
3054871	3055010	+	140	49175990	b4446	-	Novel sRNA, function unknown; paralogous to the other QUAD sRNA genes
3108388	3108463	+	76	49175990	b2967	-	^{17 Phe tRNA}
3192745	3192887	-	143	49175990	b4447	-	Putative sRNA, function unknown; paralogous to the other QUAD sRNA genes
3193121	3193262	-	142	49175990	b4611	-	Putative sRNA, function unknown; paralogous to the other QUAD sRNA genes
3213620	3213695	+	76	49175990	b3069	-	^{16 Met tRNA Неверная идентификация}
3236396	3236583	+	188	49175990	b4448	-	Novel sRNA, function unknown
3268238	3268614	-	377	49175990	b3123	-	RNase P, M1 sRNA component; involved in transfer RNA and 4.5S RNA-processing
3309247	3309420	+	174	49175990	b4449	-	Novel sRNA, function unknown
3316235	3316311	-	77	49175990	b3171	-	^{16 Met tRNA}
3320094	3320180	-	87	49175990	b3174	-	^{15 Leu tRNA}
3348599	3348706	+	108	49175990	b4450	-	Novel sRNA, function unknown
3421445	3421564	-	120	49175990	b3272	-	5S ribosomal RNA of rrnD operon
3421602	3421677	-	76	49175990	b3273	-	^{12 Thr tRNA}
3421690	3421809	-	120	49175990	b3274	-	5S ribosomal RNA of rrnD operon
3421902	3424805	-	2904	49175990	b3275	-	23S ribosomal RNA of rrnD operon
3424980	3425055	-	76	49175990	b3276	-	^{02 Ala tRNA}
3425098	3425174	-	77	49175990	b3277	-	^{14 Ile tRNA}
3425243	3426784	-	1542	49175990	b3278	-	16S ribosomal RNA of rrnD operon
3578950	3579039	-	90	49175990	b4451	-	Regulatory sRNA mediating positive Fur regulon response; requires Hfq for function; global iron regulator; degraded by RNase E when bound to target
3662887	3662991	+	105	49175990	b4452	-	sRNA regulator of gadAB transcriptional activator GadX mRNA
3698159	3698222	+	64	49175990	b4454	-	Antisense sRNA RdlD affects LdrD translation; proposed addiction module in LDR-D repeat, with toxic peptide LdrD
3706639	3706715	-	77	49175990	b3545	-	^{03 Pro tRNA}
3720099	3720128	+	30	49175990	b4614	-
3834245	3834339	+	95	49175990	b3658	-	Selenocysteyl tRNA(UCA) (converted from serine tRNA)
3851141	3851280	-	140	49175990	b4616	-	sRNAs IstR-1 and IstR-2, tisB regulators
3939831	3941372	+	1542	49175990	b3756	-	16S ribosomal RNA of rrnC operon
3941458	3941533	+	76	49175990	b3757	-	^{04 Glu tRNA}
3941727	3944630	+	2904	49175990	b3758	-	23S ribosomal RNA of rrnC operon
3944723	3944842	+	120	49175990	b3759	-	5S ribosomal RNA of rrnC operon
3944895	3944971	+	77	49175990	b3760	-	^{06 Asp tRNA}
3944980	3945055	+	76	49175990	b3761	-	^{20 Trp tRNA}
3980398	3980474	+	77	49175990	b3796	-	^{11 Arg tRNA}
3980532	3980608	+	77	49175990	b3797	-	^{09 His tRNA}
3980629	3980715	+	87	49175990	b3798	-	^{15 Leu tRNA}
3980758	3980834	+	77	49175990	b3799	-	^{03 Pro tRNA}
3984455	3984626	+	172	49175990	b4456	-	Novel sRNA, function unknown
4033554	4035095	+	1542	49175990	b3851	-	16S ribosomal RNA of rrnA operon
4035164	4035240	+	77	49175990	b3852	-	^{14 Ile tRNA}
4035283	4035358	+	76	49175990	b3853	-	^{02 Ala tRNA}
4035542	4038446	+	2905	49175990	b3854	-	23S ribosomal RNA of rrnA operon
4038540	4038659	+	120	49175990	b3855	-	5S ribosomal RNA of rrnA operon
4047922	4048030	+	109	49175990	b3864	-	Spot 42 sRNA; antisense regulator of galK translation
4049059	4049303	+	245	49175990	b4457	-	CsrC sRNA sequesters CsrA, a carbon flux regulator; also affects biofilms and motilty
4156308	4156417	-	110	49175990	b4458	-	OxyS sRNA activates genes that detoxify oxidative damage
4164682	4166223	+	1542	49175990	b3968	-	16S ribosomal RNA of rrnB operon
4166395	4166470	+	76	49175990	b3969	-	^{04 Glu tRNA}
4166664	4169567	+	2904	49175990	b3970	-	23S ribosomal RNA of rrnB operon
4169660	4169779	+	120	49175990	b3971	-	5S ribosomal RNA of rrnB operon
4173411	4173486	+	76	49175990	b3976	-	^{12 Thr tRNA}
4173495	4173579	+	85	49175990	b3977	-	^{18 Tyr tRNA}
4173696	4173770	+	75	49175990	b3978	-	^{01 Gly tRNA}
4173777	4173852	+	76	49175990	b3979	-	^{12 Thr tRNA}
4206170	4207711	+	1542	49175990	b4007	-	16S ribosomal RNA of rrnE operon
4207797	4207872	+	76	49175990	b4008	-	^{04 Glu tRNA}
4208066	4210969	+	2904	49175990	b4009	-	23S ribosomal RNA of rrnE operon
4211063	4211182	+	120	49175990	b4010	-	5S ribosomal RNA of rrnE operon
4275950	4276089	-	140	49175990	b4459	-	Novel sRNA, function unknown
4360574	4360649	-	76	49175990	b4134	-	^{17 Phe tRNA}
4390383	4390458	+	76	49175990	b4163	-	^{01 Gly tRNA}
4390495	4390570	+	76	49175990	b4164	-	^{01 Gly tRNA}
4390606	4390681	+	76	49175990	b4165	-	^{01 Gly tRNA}
4494428	4494512	+	85	49175990	b4270	-	^{15 Leu tRNA}
4526000	4526089	+	90	49175990	b4624	-	Novel sRNA, function unknown
4577858	4577934	+	77	49175990	b4625	-	Novel sRNA, function unknown
4604102	4604188	-	87	49175990	b4368	-	^{15 Leu tRNA}
4604223	4604309	-	87	49175990	b4369	-	^{15 Leu tRNA}
4604338	4604424	-	87	49175990	b4370	-	^{15 Leu tRNA}