ФЭНДОМ


   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     JOURNAL   Unpublished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     JOURNAL   Unpublished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     JOURNAL   Unpublished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 Править

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</sub> Ile tRNA
225500 225575 + 76 49175990 b0203 - 02</sub> 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</sub> Asp tRNA
236931 237007 + 77 49175990 b0216 - 06</sub> Asp tRNA
262095 262170 + 76 49175990 b0244 - 12</sub> 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</sub> Arg tRNA
695653 695727 - 75 49175990 b0664 - 05</sub> Gln tRNA
695765 695839 - 75 49175990 b0665 - 05</sub> Gln tRNA
695887 695963 - 77 49175990 b0666 - 16</sub> Met tRNA
695979 696053 - 75 49175990 b0668 - 05</sub> Gln tRNA
696088 696162 - 75 49175990 b0670 - 05</sub> Gln tRNA
696186 696270 - 85 49175990 b0672 - 15</sub> Leu tRNA
696280 696356 - 77 49175990 b0673 - 16</sub> Met tRNA
779777 779852 + 76 49175990 b0743 - 10</sub> Lys tRNA
779988 780063 + 76 49175990 b0744 - 13</sub> Val tRNA
780066 780141 + 76 49175990 b0745 - 10</sub> Lys tRNA
780291 780366 + 76 49175990 b0746 - 13</sub> Val tRNA
780370 780445 + 76 49175990 b0747 - 10</sub> Lys tRNA
780592 780667 + 76 49175990 b0748 - 10</sub> Lys tRNA
780800 780875 + 76 49175990 b0749 - 10</sub> 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</sub> Ser tRNA
1030848 1030935 - 88 49175990 b0971 - 08</sub> Ser tRNA
1096788 1096875 - 88 49175990 b1032 - 08</sub> 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</sub> Tyr tRNA
1286761 1286845 - 85 49175990 b1231 - 18</sub> 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</sub> Val tRNA
1744540 1744616 + 77 49175990 b1666 - 13</sub> 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</sub> Leu tRNA
1989938 1990011 - 74 49175990 b1910 - 19</sub> Cys tRNA
1990066 1990141 - 76 49175990 b1911 - 01</sub> 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</sub> Ser tRNA
2042573 2042648 + 76 49175990 b1977 - 07</sub> Asn tRNA
2056051 2056126 - 76 49175990 b1984 - 07</sub> Asn tRNA
2057875 2057950 + 76 49175990 b1986 - 07</sub> Asn tRNA
2060284 2060359 + 76 49175990 b1989 - 07</sub> 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</sub> Pro tRNA
2311106 2311198 + 93 49175990 b4439 - Regulatory antisense sRNA affecting ompF expression; member of soxRS regulon
2464331 2464405 + 75 49175990 b2348 - 11</sub> Arg tRNA
2516063 2516138 - 76 49175990 b2396 - 02</sub> Ala tRNA
2516178 2516253 - 76 49175990 b2397 - 02</sub> Ala tRNA
2518953 2519028 + 76 49175990 b2401 - 13</sub> Val tRNA
2519073 2519148 + 76 49175990 b2402 - 13</sub> Val tRNA
2519195 2519270 + 76 49175990 b2403 - 13</sub> Val tRNA
2519275 2519350 + 76 49175990 b2404 - 10</sub> 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</sub> 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</sub> Ile tRNA
2812824 2812901 + 78 49175990 b4442 - sRNA effector of ompA mRNA instability in stationary phase; requires Hfq
2815806 2815882 - 77 49175990 b2691 - 11</sub> Arg tRNA
2816081 2816157 - 77 49175990 b2692 - 11</sub> Arg tRNA
2816220 2816296 - 77 49175990 b2693 - 11</sub> Arg tRNA
2816495 2816571 - 77 49175990 b2694 - 11</sub> Arg tRNA
2816575 2816667 - 93 49175990 b2695 - 08</sub> 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</sub> Met tRNA
2945519 2945595 + 77 49175990 b2815 - 16</sub> Met tRNA
2945629 2945705 + 77 49175990 b2816 - 16</sub> 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</sub> 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</sub> 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</sub> 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</sub> Met tRNA
3320094 3320180 - 87 49175990 b3174 - 15</sub> 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</sub> 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</sub> Ala tRNA
3425098 3425174 - 77 49175990 b3277 - 14</sub> 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</sub> 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</sub> 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</sub> Asp tRNA
3944980 3945055 + 76 49175990 b3761 - 20</sub> Trp tRNA
3980398 3980474 + 77 49175990 b3796 - 11</sub> Arg tRNA
3980532 3980608 + 77 49175990 b3797 - 09</sub> His tRNA
3980629 3980715 + 87 49175990 b3798 - 15</sub> Leu tRNA
3980758 3980834 + 77 49175990 b3799 - 03</sub> 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</sub> Ile tRNA
4035283 4035358 + 76 49175990 b3853 - 02</sub> 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</sub> 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</sub> Thr tRNA
4173495 4173579 + 85 49175990 b3977 - 18</sub> Tyr tRNA
4173696 4173770 + 75 49175990 b3978 - 01</sub> Gly tRNA
4173777 4173852 + 76 49175990 b3979 - 12</sub> Thr tRNA
4206170 4207711 + 1542 49175990 b4007 - 16S ribosomal RNA of rrnE operon
4207797 4207872 + 76 49175990 b4008 - 04</sub> 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</sub> Phe tRNA
4390383 4390458 + 76 49175990 b4163 - 01</sub> Gly tRNA
4390495 4390570 + 76 49175990 b4164 - 01</sub> Gly tRNA
4390606 4390681 + 76 49175990 b4165 - 01</sub> Gly tRNA
4494428 4494512 + 85 49175990 b4270 - 15</sub> 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</sub> Leu tRNA
4604223 4604309 - 87 49175990 b4369 - 15</sub> Leu tRNA
4604338 4604424 - 87 49175990 b4370 - 15</sub> Leu tRNA