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circdna.gb
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circdna.gb
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LOCUS circ 3248 bp ds-DNA circular 16-SEP-2017
DEFINITION Escherichia coli str. K-12 substr. MG1655, complete genome.
ACCESSION U00096
VERSION U00096.3 GI:545778205
DBLINK BioProject: PRJNA225 BioSample: SAMN02604091
KEYWORDS .
SOURCE Escherichia coli str. K-12 substr. MG1655
ORGANISM Escherichia coli str. K-12 substr. MG1655 Bacteria; Proteobacteria;
Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae;
Escherichia.
REFERENCE 1 (bases 1 to 4641652)
AUTHORS Blattner,F.R., Plunkett,G. III, 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), 1453-1462 (1997)
PUBMED 9278503
REFERENCE 2 (bases 1 to 4641652)
AUTHORS Hayashi,K., Morooka,N., Yamamoto,Y., Fujita,K., Isono,K., Choi,S.,
Ohtsubo,E., Baba,T., Wanner,B.L., Mori,H. and Horiuchi,T.
TITLE Highly accurate genome sequences of Escherichia coli K-12 strains
MG1655 and W3110
JOURNAL Mol. Syst. Biol. 2, 2006 (2006)
PUBMED 16738553
REFERENCE 3 (bases 1 to 4641652)
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 Nucleic Acids Res. 34 (1), 1-9 (2006)
PUBMED 16397293
REMARK Publication Status: Online-Only
REFERENCE 4 (bases 1 to 4641652)
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JOURNAL Unpublished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 5 (bases 1 to 4641652)
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JOURNAL Unpublished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 6 (bases 1 to 4641652)
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 7 (bases 1 to 4641652)
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 8 (bases 1 to 4641652)
AUTHORS Rudd,K.E.
TITLE A manual approach to accurate translation start site annotation: an
E. coli K-12 case study
JOURNAL Unpublished
REFERENCE 9 (bases 1 to 4641652)
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
REFERENCE 10 (bases 1 to 4641652)
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 11 (bases 1 to 4641652)
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 12 (bases 1 to 4641652)
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 13 (bases 1 to 4641652)
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 14 (bases 1 to 4641652)
AUTHORS Rudd,K.E.
TITLE Direct Submission
JOURNAL Submitted (24-APR-2007) Department of Biochemistry and Molecular
Biology, University of Miami Miller School of Medicine, 118 Gautier
Bldg., Miami, FL 33136, USA
REMARK Annotation update from ecogene.org as a multi-database
collaboration
REFERENCE 15 (bases 1 to 4641652)
AUTHORS Rudd,K.E.
TITLE Direct Submission
JOURNAL Submitted (06-FEB-2013) Department of Biochemistry and Molecular
Biology, University of Miami Miller School of Medicine, 118 Gautier
Bldg., Miami, FL 33136, USA
REMARK Sequence update by submitter
REFERENCE 16 (bases 1 to 4641652)
AUTHORS Blattner,F.R. and Plunkett,G. III.
TITLE Direct Submission
JOURNAL Submitted (26-SEP-2013) Laboratory of Genetics, University of
Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
REMARK Sequence update by submitter
REFERENCE 17 (bases 1 to 4641652)
AUTHORS Blattner,F.R. and Plunkett,G. III.
TITLE Direct Submission
JOURNAL Submitted (15-NOV-2013) Laboratory of Genetics, University of
Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
REMARK Protein update by submitter
REFERENCE 18 (bases 1 to 4641652)
AUTHORS Blattner,F.R. and Plunkett,G. III.
TITLE Direct Submission
JOURNAL Submitted (30-JUL-2014) Laboratory of Genetics, University of
Wisconsin, 425G Henry Mall, Madison, WI 53706-1580, USA
REMARK Protein update by submitter
COMMENT MG1655 mhp-lac region from 10608 to 17047
COMMENT mg1655 from 358276 to 378193
COMMENT On Sep 26, 2013 this sequence version replaced gi:48994873. Current
U00096 annotation updates are derived from EcoGene
http://ecogene.org. Suggestions for updates can be sent to Dr.
Kenneth Rudd (krudd@miami.edu). These updates are being generated
from a collaboration that also includes ASAP/ERIC, the Coli Genetic
Stock Center, EcoliHub, EcoCyc, RegulonDB and UniProtKB/Swiss-Prot.
COMMENT ApEinfo:methylated:1
FEATURES Location/Qualifiers
misc_feature 2496..2500
/locus_tag="RBS"
/label="RBS"
/ApEinfo_label="RBS"
/ApEinfo_fwdcolor="#ff0000"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
misc_feature 2496..2506
/locus_tag="plac"
/label="plac"
/ApEinfo_label="plac"
/ApEinfo_fwdcolor="cyan"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
CDS join(2507..3248,1..2333)
/gene="lacZ"
/gene_synonym="ECK0341"
/gene_synonym="JW0335"
/EC_number="3.2.1.23"
/function="enzyme; Degradation of small molecules: Carbon
compounds"
/note="GO_component: GO:0005737 - cytoplasm; GO_process:
GO:0016052 - carbohydrate catabolic process"
/codon_start=1
/transl_table=11
/product="beta-D-galactosidase"
/protein_id="AAC73447.1"
/db_xref="GI:1786539"
/db_xref="ASAP:ABE-0001183"
/db_xref="UniProtKB/Swiss-Prot:P00722"
/db_xref="EcoGene:EG10527"
/translation="MTMITDSLAVVLQRRDWENPGVTQLNRLAAHPPFASWRNSEEAR
TDRPSQQLRSLNGEWRFAWFPAPEAVPESWLECDLPEADTVVVPSNWQMHGYDAPIYT
NVTYPITVNPPFVPTENPTGCYSLTFNVDESWLQEGQTRIIFDGVNSAFHLWCNGRWV
GYGQDSRLPSEFDLSAFLRAGENRLAVMVLRWSDGSYLEDQDMWRMSGIFRDVSLLHK
PTTQISDFHVATRFNDDFSRAVLEAEVQMCGELRDYLRVTVSLWQGETQVASGTAPFG
GEIIDERGGYADRVTLRLNVENPKLWSAEIPNLYRAVVELHTADGTLIEAEACDVGFR
EVRIENGLLLLNGKPLLIRGVNRHEHHPLHGQVMDEQTMVQDILLMKQNNFNAVRCSH
YPNHPLWYTLCDRYGLYVVDEANIETHGMVPMNRLTDDPRWLPAMSERVTRMVQRDRN
HPSVIIWSLGNESGHGANHDALYRWIKSVDPSRPVQYEGGGADTTATDIICPMYARVD
EDQPFPAVPKWSIKKWLSLPGETRPLILCEYAHAMGNSLGGFAKYWQAFRQYPRLQGG
FVWDWVDQSLIKYDENGNPWSAYGGDFGDTPNDRQFCMNGLVFADRTPHPALTEAKHQ
QQFFQFRLSGQTIEVTSEYLFRHSDNELLHWMVALDGKPLASGEVPLDVAPQGKQLIE
LPELPQPESAGQLWLTVRVVQPNATAWSEAGHISAWQQWRLAENLSVTLPAASHAIPH
LTTSEMDFCIELGNKRWQFNRQSGFLSQMWIGDKKQLLTPLRDQFTRAPLDNDIGVSE
ATRIDPNAWVERWKAAGHYQAEAALLQCTADTLADAVLITTAHAWQHQGKTLFISRKT
YRIDGSGQMAITVDVEVASDTPHPARIGLNCQLAQVAERVNWLGLGPQENYPDRLTAA
CFDRWDLPLSDMYTPYVFPSENGLRCGTRELNYGPHQWRGDFQFNISRYSQQQLMETS
HRHLLHAEEGTWLNIDGFHMGIGGDDSWSPSVSAEFQLSAGRYHYQLVWCQK"
/locus_tag="beta-D-galactosidase"
/label="beta-D-galactosidase"
/ApEinfo_label="beta-D-galactosidase"
/ApEinfo_fwdcolor="pink"
/ApEinfo_revcolor="pink"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
misc_feature 2469
/locus_tag="New Feature"
/label="New Feature"
/ApEinfo_label="New Feature"
/ApEinfo_fwdcolor="#ff0020"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
gene join(2507..3248,1..2333)
/gene="lacZ"
/gene_synonym="ECK0341"
/gene_synonym="JW0335"
/db_xref="EcoGene:EG10527"
/locus_tag="lacZ"
/label="lacZ"
/ApEinfo_label="lacZ"
/ApEinfo_fwdcolor="pink"
/ApEinfo_revcolor="pink"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
misc_feature 2470..2489
/locus_tag="operator"
/label="operator"
/ApEinfo_label="operator"
/ApEinfo_fwdcolor="#590cff"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
misc_feature 2385..2495
/locus_tag="plac(1)"
/label="plac(1)"
/ApEinfo_label="plac"
/ApEinfo_fwdcolor="#00ffff"
/ApEinfo_revcolor="green"
/ApEinfo_graphicformat="arrow_data {{0 1 2 0 0 -1} {} 0}
width 5 offset 0"
ORIGIN
1 GCGGCGAGTT GCGTGACTAC CTACGGGTAA CAGTTTCTTT ATGGCAGGGT GAAACGCAGG
61 TCGCCAGCGG CACCGCGCCT TTCGGCGGTG AAATTATCGA TGAGCGTGGT GGTTATGCCG
121 ATCGCGTCAC ACTACGTCTG AACGTCGAAA ACCCGAAACT GTGGAGCGCC GAAATCCCGA
181 ATCTCTATCG TGCGGTGGTT GAACTGCACA CCGCCGACGG CACGCTGATT GAAGCAGAAG
241 CCTGCGATGT CGGTTTCCGC GAGGTGCGGA TTGAAAATGG TCTGCTGCTG CTGAACGGCA
301 AGCCGTTGCT GATTCGAGGC GTTAACCGTC ACGAGCATCA TCCTCTGCAT GGTCAGGTCA
361 TGGATGAGCA GACGATGGTG CAGGATATCC TGCTGATGAA GCAGAACAAC TTTAACGCCG
421 TGCGCTGTTC GCATTATCCG AACCATCCGC TGTGGTACAC GCTGTGCGAC CGCTACGGCC
481 TGTATGTGGT GGATGAAGCC AATATTGAAA CCCACGGCAT GGTGCCAATG AATCGTCTGA
541 CCGATGATCC GCGCTGGCTA CCGGCGATGA GCGAACGCGT AACGCGAATG GTGCAGCGCG
601 ATCGTAATCA CCCGAGTGTG ATCATCTGGT CGCTGGGGAA TGAATCAGGC CACGGCGCTA
661 ATCACGACGC GCTGTATCGC TGGATCAAAT CTGTCGATCC TTCCCGCCCG GTGCAGTATG
721 AAGGCGGCGG AGCCGACACC ACGGCCACCG ATATTATTTG CCCGATGTAC GCGCGCGTGG
781 ATGAAGACCA GCCCTTCCCG GCTGTGCCGA AATGGTCCAT CAAAAAATGG CTTTCGCTAC
841 CTGGAGAGAC GCGCCCGCTG ATCCTTTGCG AATACGCCCA CGCGATGGGT AACAGTCTTG
901 GCGGTTTCGC TAAATACTGG CAGGCGTTTC GTCAGTATCC CCGTTTACAG GGCGGCTTCG
961 TCTGGGACTG GGTGGATCAG TCGCTGATTA AATATGATGA AAACGGCAAC CCGTGGTCGG
1021 CTTACGGCGG TGATTTTGGC GATACGCCGA ACGATCGCCA GTTCTGTATG AACGGTCTGG
1081 TCTTTGCCGA CCGCACGCCG CATCCAGCGC TGACGGAAGC AAAACACCAG CAGCAGTTTT
1141 TCCAGTTCCG TTTATCCGGG CAAACCATCG AAGTGACCAG CGAATACCTG TTCCGTCATA
1201 GCGATAACGA GCTCCTGCAC TGGATGGTGG CGCTGGATGG TAAGCCGCTG GCAAGCGGTG
1261 AAGTGCCTCT GGATGTCGCT CCACAAGGTA AACAGTTGAT TGAACTGCCT GAACTACCGC
1321 AGCCGGAGAG CGCCGGGCAA CTCTGGCTCA CAGTACGCGT AGTGCAACCG AACGCGACCG
1381 CATGGTCAGA AGCCGGGCAC ATCAGCGCCT GGCAGCAGTG GCGTCTGGCG GAAAACCTCA
1441 GTGTGACGCT CCCCGCCGCG TCCCACGCCA TCCCGCATCT GACCACCAGC GAAATGGATT
1501 TTTGCATCGA GCTGGGTAAT AAGCGTTGGC AATTTAACCG CCAGTCAGGC TTTCTTTCAC
1561 AGATGTGGAT TGGCGATAAA AAACAACTGC TGACGCCGCT GCGCGATCAG TTCACCCGTG
1621 CACCGCTGGA TAACGACATT GGCGTAAGTG AAGCGACCCG CATTGACCCT AACGCCTGGG
1681 TCGAACGCTG GAAGGCGGCG GGCCATTACC AGGCCGAAGC AGCGTTGTTG CAGTGCACGG
1741 CAGATACACT TGCTGATGCG GTGCTGATTA CGACCGCTCA CGCGTGGCAG CATCAGGGGA
1801 AAACCTTATT TATCAGCCGG AAAACCTACC GGATTGATGG TAGTGGTCAA ATGGCGATTA
1861 CCGTTGATGT TGAAGTGGCG AGCGATACAC CGCATCCGGC GCGGATTGGC CTGAACTGCC
1921 AGCTGGCGCA GGTAGCAGAG CGGGTAAACT GGCTCGGATT AGGGCCGCAA GAAAACTATC
1981 CCGACCGCCT TACTGCCGCC TGTTTTGACC GCTGGGATCT GCCATTGTCA GACATGTATA
2041 CCCCGTACGT CTTCCCGAGC GAAAACGGTC TGCGCTGCGG GACGCGCGAA TTGAATTATG
2101 GCCCACACCA GTGGCGCGGC GACTTCCAGT TCAACATCAG CCGCTACAGT CAACAGCAAC
2161 TGATGGAAAC CAGCCATCGC CATCTGCTGC ACGCGGAAGA AGGCACATGG CTGAATATCG
2221 ACGGTTTCCA TATGGGGATT GGTGGCGACG ACTCCTGGAG CCCGTCAGTA TCGGCGGAAT
2281 TCCAGCTGAG CGCCGGTCGC TACCATTACC AGTTGGTCTG GTGTCAAAAA TAATAATAAC
2341 CGGGCAGGCC ATGTCTGCCC GTATTTCGCG TAAGGAAATC CATTGCGCAA CGCAATTAAT
2401 GTGAGTTAGC TCACTCATTA GGCACCCCAG GCTTTACACT TTATGCTTCC GGCTCGTATG
2461 TTGTGTGGAA TTGTGAGCGG ATAACAATTT CACACAGGAA ACAGCTATGA CCATGATTAC
2521 GGATTCACTG GCCGTCGTTT TACAACGTCG TGACTGGGAA AACCCTGGCG TTACCCAACT
2581 TAATCGCCTT GCAGCACATC CCCCTTTCGC CAGCTGGCGT AATAGCGAAG AGGCCCGCAC
2641 CGATCGCCCT TCCCAACAGT TGCGCAGCCT GAATGGCGAA TGGCGCTTTG CCTGGTTTCC
2701 GGCACCAGAA GCGGTGCCGG AAAGCTGGCT GGAGTGCGAT CTTCCTGAGG CCGATACTGT
2761 CGTCGTCCCC TCAAACTGGC AGATGCACGG TTACGATGCG CCCATCTACA CCAACGTGAC
2821 CTATCCCATT ACGGTCAATC CGCCGTTTGT TCCCACGGAG AATCCGACGG GTTGTTACTC
2881 GCTCACATTT AATGTTGATG AAAGCTGGCT ACAGGAAGGC CAGACGCGAA TTATTTTTGA
2941 TGGCGTTAAC TCGGCGTTTC ATCTGTGGTG CAACGGGCGC TGGGTCGGTT ACGGCCAGGA
3001 CAGTCGTTTG CCGTCTGAAT TTGACCTGAG CGCATTTTTA CGCGCCGGAG AAAACCGCCT
3061 CGCGGTGATG GTGCTGCGCT GGAGTGACGG CAGTTATCTG GAAGATCAGG ATATGTGGCG
3121 GATGAGCGGC ATTTTCCGTG ACGTCTCGTT GCTGCATAAA CCGACTACAC AAATCAGCGA
3181 TTTCCATGTT GCCACTCGCT TTAATGATGA TTTCAGCCGC GCTGTACTGG AGGCTGAAGT
3241 TCAGATGT
//