Escherichia coli K-12 MG1655
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Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0012738 (rhaB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0012738 showshow history
Names
rhaB JW3875 ECK3897 b3904
Product
rhamnulokinase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 4095979 4097448 1470 490
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Person Approved ADX-0001499
EnteroFam0012738: Trusted threshold=1313.4; Members of this family are defined by searches with an hmm constructed from an alignment of putative orthologous proteins from eight genomes (E. coli MG1655, E. coli EDL933, S. enterica Typhimurium LT2, S. enterica Typhi CT18, Y. pestis CO92, Y. pseudotuberculosis 32953, E. chrysanthemi 3937 and E. carotovora atroseptica SCRI1043). 		Jan 2006
Automated Process Approved IPR000577 (IPR000577 Carbohydrate kinase, FGGY) Apr 2008
Automated Process Approved IPR013449 (IPR013449 Rhamnulokinase) Apr 2008
Automated Process Approved IPR018485 (IPR018485 Carbohydrate kinase, FGGY, C-terminal) Jul 2018
Automated Process Approved IPR018484 (IPR018484 Carbohydrate kinase, FGGY, N-terminal) Jul 2018
Automated Process Approved PF02782 (PF02782 FGGY family of carbohydrate kinases, C-terminal domain) Jul 2018
Automated Process Approved PF00370 (PF00370 FGGY family of carbohydrate kinases, N-terminal domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0019301 rhamnose catabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013449
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO biological process GO:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000577
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO molecular function GO:0016773 phosphotransferase activity, alcohol group as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR018485, IPR018484
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0008993 rhamnulokinase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013449
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Automated Process Approved name rhaB Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 MG1655 		Sep 2007
Person Approved synonym JW3875 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK3897 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3904 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product rhamnulokinase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name rhamnulokinase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Person Approved EnteroFam EnteroFam0012738: Trusted threshold=1313.4; Members of this family are defined by searches with an hmm constructed from an alignment of putative orthologous proteins from eight genomes (E. coli MG1655, E. coli EDL933, S. enterica Typhimurium LT2, S. enterica Typhi CT18, Y. pestis CO92, Y. pseudotuberculosis 32953, E. chrysanthemi 3937 and E. carotovora atroseptica SCRI1043). Protein Sequence Similarity - ASAP FeatureID: ADX-0001499
Reference: EnteroFams 		Jan 2006
Automated Process Approved protein family IPR000577 Carbohydrate kinase, FGGY Protein Sequence Similarity - InterPro Domain: IPR000577
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF02782 FGGY family of carbohydrate kinases, C-terminal domain Protein Sequence Similarity - PFAM Model Name: PF02782
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR013449 Rhamnulokinase Protein Sequence Similarity - InterPro Domain: IPR013449
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR018484 Carbohydrate kinase, FGGY, N-terminal Protein Sequence Similarity - InterPro Domain: IPR018484
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00370 FGGY family of carbohydrate kinases, N-terminal domain Protein Sequence Similarity - PFAM Model Name: PF00370
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR018485 Carbohydrate kinase, FGGY, C-terminal Protein Sequence Similarity - InterPro Domain: IPR018485
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Approved EC number 2.7.1.5 Published Annotation - Swiss-Prot Accession Number: P32171 Feb 2006
Automated Process Uncurated EC number 2.7.1.- Published Annotation - Database Name: EC2GO: GO:0016773
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Uncurated MultiFun 1.1.1 (metabolism; carbon utilization; carbon compounds) Published Annotation - MultiFun Database Name: MultiFun Feb 2002
Automated Process Approved codon start 1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG11868 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948399 Published Annotation - Entrez Gene Database ID: 948399
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref GI:1790338 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P32171 Published Annotation - Swiss-Prot Accession Number: P32171 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P32171 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0012738 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Degradation of small molecules: Carbon compounds Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note GO_process: GO:0016052 - carbohydrate catabolic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC76886.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 8.96
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 2009
Person Uncurated subsystem component of in silico model iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 2009
Person Uncurated subsystem component of in silico model iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Gene Ontology
Automated Process Approved GO biological process GO:0005975 carbohydrate metabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000577
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Person Uncurated GO biological process GO:0016052 carbohydrate catabolic process Ontology Mapping - Source and Dest Ontology: MultiFun to GO Mar 2004
Automated Process Approved GO biological process GO:0019301 rhamnose catabolic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013449
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO cellular component GO:0005737 cytoplasm GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Automated Process Uncurated GO molecular function GO:0016773 phosphotransferase activity, alcohol group as acceptor GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR018485, IPR018484
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0008993 rhamnulokinase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR013449
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Person Approved Go view EnteroFams ADX-0001499 rhaB CDS
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0001946 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0002161 rhaB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0002260 rhaB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0005782 rhaB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0002378 rhaB CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0004122 rhaB CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004356 rhaB CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000371 rhaB CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0008714 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0018900 rhaB CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000481 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000182 rhaB CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007562 rhaB CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004159 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0007132 rhaB CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003959 rhaB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0000270 rhaB CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010317 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0006926 rhaB CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0006597 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081051 rhaB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004332 rhaB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004720 rhaB CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006377 rhaB CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0007651 rhaB CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004480 rhaB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008870 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0001139 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008686 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007199 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007390 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0006938 rhaB CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010188 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0007897 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008002 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0007546 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007629 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007303 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0007254 rhaB CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0007072 rhaB CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029055 rhaB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007766 rhaB CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008818 rhaB CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004553 rhaB CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003616 rhaB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003449 rhaB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004603 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004571 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004434 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004501 rhaB CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178618 rhaB CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004279 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004290 rhaB CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0134927 rhaB CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001734 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004496 rhaB CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001897 rhaB CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0004261 rhaB CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002340 rhaB CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0008511 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0001323 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0003721 rhaB CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0001769 rhaB CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0002508 rhaB CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0001637 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0009742 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0001840 CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0005158 rhaB CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0060655 rhaB CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0000300 rhaB CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0000141 rhaB CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0002863 rhaB CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0004949 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008454 rhaB CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0003774 CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0004625 rhaB CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008684 rhaB CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0012665 rhaB CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0010278 rhaB CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007504 rhaB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008732 rhaB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0007842 rhaB CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0007645 rhaB CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0007339 rhaB CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007841 rhaB CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008680 rhaB CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0008627 rhaB CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003929 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0003887 rhaB CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0005034 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008866 rhaB CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0006710 rhaB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008325 rhaB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0006917 rhaB CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0113067 rhaB CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0085296 rhaB CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0004872 rhaB CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0102449 rhaB CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005113 rhaB CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0007851 rhaB CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0005889 rhaB CDS
Person Approved Go view Shigella boydii 227 ADV-0004276 rhaB CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0005826 rhaB CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075004 rhaB CDS
Person Approved Go view Shigella flexneri 301 ABT-0090198 rhaB CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003815 rhaB CDS
Person Approved Go view Shigella sonnei 046 ADD-0004436 rhaB CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002476 rhaB CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0002958 rhaB CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0235327 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0004848 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0004716 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0007959 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0002978 rhaB CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0116426 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0006757 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0006956 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0003568 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0005621 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0007449 rhaB CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0030212 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0004801 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0004017 rhaB CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0004377 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0008849 rhaB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007782 rhaB CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0000416 rhaB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000480 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0004562 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0005764 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000913 rhaB CDS
Experimental to toptop
SelectSetNameSetDetailsNotes
stringent responsetranscriptional profile of the stringent responseNone
Recombinant heat-shock dataexpression data for recombinant strain under heat shockThese data are from the Harcum laboratory. (Jeremy Glasner)
Suppressor tRNA expressionexperiment comparing transcript levels in cells with and without suppressor tRNA expressionThese data were reported in the paper: Herring and Blattner. 2004. Global transcriptional effects of a suppressor tRNA and the inactivation of the regulator frmR. J. Bacteriol. 186(20):6714-20. Link to Abstract (Jeremy Glasner)
Recombinant E. coli expressionexperiment comparing expression of wild-type E. coli with the same strain harboring a plasmid that expresses protein when induced with IPTG These data were reported in the paper: F. T. Haddadin, S. W. Harcum (2005) Transcriptome profiles for high-cell-density recombinant and wild-type Escherichia coli, Biotechnology and Bioengineering, 90:127-153. Link to Abstract (Jeremy Glasner)
Aerobic shiftAerobic shiftThese data were reported in the paper: Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO. 2004. Integrating high-throughput and computational data elucidates bacterial networks. Nature. 2004 May 6;429(6987):92-6. Link to Abstract (Jeremy Glasner)
CalibratorCalibrated microarray experiments (50 hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
AffyData1Affymetrix Experiments (data from 41 chip hybridizations)This data was used in the paper: Allen et al., J. Bacteriol. 185(21):6392-9 (Jeremy Glasner)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB21529mutantTn5 InsertionRequest the StrainABE-0012738rhaBrhaB::Tn5KAN-I-SceI at position 476 in Minus orientation ,+ pKD460Blattner Laboratory
FB21530mutantTn5 InsertionRequest the StrainABE-0012738rhaBrhaB::Tn5KAN-I-SceI at position 476 in Minus orientation ,- pKD465Blattner Laboratory
Context Table to toptop

Listed below are features that lie nearby this feature. Features encoded in multiple intervals may appear more than once in the table. Features that span the origin will have a left endpoint greater than the right endpoint.

Features overlapping the region 4090979 to 4102448
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0012725frvBCDScomplement40909154092366Downstream
ABE-0012727frvACDScomplement40923774092823Downstream
ABE-0012729rhaMCDScomplement40931244093438Downstream
ABE-0012731rhaDCDScomplement40934484094272Downstream
ABE-0285652repeat_regionforward40943164094717Downstream
ABE-0012736rhaACDScomplement40947234095982Overlaps Downstream
ABE-0012738rhaBCDScomplement40959794097448Matches
ABE-0012745rhaSCDSforward40977364098572Upstream
ABE-0012747rhaRCDSforward40986464099494Upstream
ABE-0012749rhaTCDScomplement40994914100525Upstream
ABE-0012761sodACDSforward41008104101430Upstream
ABE-0012764kdgTCDSforward41016904102673Upstream
Release Notes to toptop
All MG1655 annotations and sequence data are publicly available, and investigators can use these data in publications without contacting the genome curators. This version of the sequence was the source of GenBank record U00096.3. Ongoing annotation updates to that GenBank record are being generated from a collaboration that includes ASAP, EcoGene, the Coli Genetic Stock Center, EcoliHub, EcoCyc, RegulonDB and UniProtKB/Swiss-Prot.