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

ABE-0009980 (ribB) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0009980 showshow history
Names
ribB luxH JW3009 ECK3032 htrP b3041
Product
3,4-dihydroxy-2-butanone-4-phosphate synthase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 3183813 3184466 654 218
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Person Approved ADX-0001114
EnteroFam0009980: Trusted threshold=599.1; 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 IPR000422 (IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase, RibB) Apr 2008
Automated Process Approved IPR017945 (IPR017945 DHBP synthase RibB-like alpha/beta domain superfamily) Jul 2018
Automated Process Approved PF00926 (PF00926 3,4-dihydroxy-2-butanone 4-phosphate synthase) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0009231 riboflavin biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000422
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000422
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Automated Process Approved name ribB Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 MG1655 		Sep 2007
Automated Process Approved synonym luxH Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym ECK3032 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW3009 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym htrP Published Sequence Analysis - PubMed ID: 9729611 Aug 2003
Person Approved locus tag b3041 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product 3,4-dihydroxy-2-butanone-4-phosphate synthase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name 3,4 dihydroxy-2-butanone-4-phosphate synthase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Person Approved EnteroFam EnteroFam0009980: Trusted threshold=599.1; 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-0001114
Reference: EnteroFams 		Jan 2006
Automated Process Approved protein family IPR017945 DHBP synthase RibB-like alpha/beta domain superfamily Protein Sequence Similarity - InterPro Domain: IPR017945
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00926 3,4-dihydroxy-2-butanone 4-phosphate synthase Protein Sequence Similarity - PFAM Model Name: PF00926
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase, RibB Protein Sequence Similarity - InterPro Domain: IPR000422
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 4.1.99.12 Protein Sequence Similarity - InterPro Domain: IPR000422
Reference: Escherichia coli K-12 MG1655 		Dec 2008
Person Uncurated MultiFun 1.5.3.9 (metabolism; building block biosynthesis; cofactor, small molecule carrier; riboflavin (Vitamin B2), FAD, FMN) 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 GeneID:947526 Published Annotation - Entrez Gene Database ID: 947526
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0009980 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1789420 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P0A7J0 Published Annotation - Swiss-Prot Accession Number: P0A7J0 Jan 2006
Automated Process Approved db xref UniProtKB/Swiss-Prot:P0A7J0 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG10465 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Biosynthesis of cofactors, carriers: Riboflavin Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved note 3,4 dihydroxy-2-butanone-4-phosphate synthase Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC76077.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Unknown Predicted by PSORTb - PSORTb Final_Score: 2.00
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 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:0009231 riboflavin biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000422
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000422
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-0001114 ribB CDS
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0000898 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000121 ribB CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000239 ribB CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0000225 ribB CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000325 ribB CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0000130 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0002844 CDS
Person Uncurated Go view Buchnera aphidicola APS ABZ-0129329 ribB CDS
Person Uncurated Go view Buchnera aphidicola Bp ABW-0104782 ribB CDS
Person Uncurated Go view Buchnera aphidicola Sg [T] ABV-0104166 ribB CDS
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000673 ribB CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0000216 ribB CDS
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0000709 ribB CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0004618 ribB CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0008306 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0016794 ribB CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000864 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0004634 ribB CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0305580 ribB CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0000516 ribB CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0000464 ribB CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0002455 ribB CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005719 ribB CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003166 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008078 ribB CDS
Automated Process Uncurated Go view Escherichia coli APEC O1 (APEC) AEG-0003132 ribB CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001132 ribB CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006104 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0005530 ribB CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009282 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0079966 ribB CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003504 ribB CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004105 ribB CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0005617 ribB CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005578 ribB CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0003558 ribB CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007940 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0000318 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007695 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006212 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0008471 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005630 ribB CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009191 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005974 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0006996 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005976 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006491 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005799 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005382 ribB CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006227 ribB CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028072 ribB CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007578 ribB CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007900 ribB CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002838 ribB CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003109 ribB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003673 ribB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0003321 ribB CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003496 ribB CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003384 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003337 ribB CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133986 ribB CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0005887 CDS
Automated Process Uncurated Go view Escherichia coli UTI89 (UPEC) AEA-0003492 ribB CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003208 ribB CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001357 ribB CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0003463 ribB CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0001770 ribB CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0008155 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0002570 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0002842 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0002677 ribB CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0001340 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0003473 ribB CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0000725 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0011122 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000220 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0290468 ribB CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0006414 ribB CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0061135 ribB CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0000479 ribB CDS
Person Approved Go view Pectobacterium carotovorum WPP14 ADT-0001428 ribB CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0000502 ribB CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0005381 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0145850 ribB CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007545 ribB CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004655 CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0003669 ribB CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0007799 ribB CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0009907 ribB CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0009372 ribB CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007307 ribB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0007805 ribB CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006764 ribB CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0005765 ribB CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006228 ribB CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0006936 ribB CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0007811 ribB CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0005261 ribB CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003095 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0003062 ribB CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004003 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0007964 ribB CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007108 ribB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007454 ribB CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0007375 ribB CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112143 ribB CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0084834 ribB CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0003875 ribB CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0099935 ribB CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0006037 ribB CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0006118 ribB CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0004673 ribB CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0001606 ribB CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0263681 ribB CDS
Person Uncurated Go view Shigella boydii 227 ADV-0003183 ribB CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008890 ribB CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003957 ribB CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0003675 ribB CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074470 ribB CDS
Person Approved Go view Shigella flexneri 301 ABT-0089328 ribB CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003286 ribB CDS
Person Approved Go view Shigella sonnei 046 ADD-0003469 ribB CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0003953 VCA1060 CDS
Person Uncurated Go view Wigglesworthia morsitans AEQ-0000394 ribB CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0007326 ribB CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0000280 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0010528 htrP CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0001978 ribB CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0003787 ribB CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0001446 CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0241460 ribB CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0004393 ribB CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0003751 ribB CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0006077 ribB CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0002666 ribB CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0117518 ribB CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0005046 ribB CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0005186 ribB CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0000541 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0009317 ribB CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0006356 ribB CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0033294 ribB CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0004373 ribB CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000640 ribB CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0000517 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0004649 ribB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0004510 ribB CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0003513 ribB CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0004233 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0000758 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0007026 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0002623 ribB 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)
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 3178813 to 3189466
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0009965tolCCDSforward31781153179596Downstream
ABE-0009969ygiBCDSforward31797443180415Downstream
ABE-0009971ygiCCDSforward31804213181581Downstream
ABE-0285571repeat_regionforward31815903181613Downstream
ABE-0009973ygiDCDScomplement31816193182407Downstream
ABE-0009977zupTCDSforward31825503183323Downstream
ABE-0285758yqiDCDScomplement31833813183551Downstream
ABE-0009980ribBCDScomplement31838133184466Matches
ABE-0009987ubiKCDSforward31848403185130Upstream
ABE-0009992ygiLCDSforward31854143185965Upstream
ABE-0010001yqiGpseudogeneforward31860253186095(Interval #1) Upstream
ABE-0009994is_elementcomplement31860963187426Upstream
ABE-0285572mobile_elementforward31860963187426Upstream
ABE-0009997insC-5CDSforward31861873186552Upstream
ABE-0009999insD-5CDSforward31865103187415Upstream
ABE-0010001yqiGpseudogeneforward31874323189865(Interval #2) Upstream
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.