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

ABE-0013066 (hemE) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013066 showshow history
Names
hemE hemC JW3961 ECK3989 b3997
Product
uroporphyrinogen decarboxylase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 4197716 4198780 1065 355
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Person Approved ADX-0001555
EnteroFam0013066: Trusted threshold=1064.5; 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 IPR000257 (IPR000257 Uroporphyrinogen decarboxylase (URO-D)) Apr 2008
Automated Process Approved IPR006361 (IPR006361 Uroporphyrinogen decarboxylase HemE) Apr 2008
Automated Process Approved IPR014670 (IPR014670 (DEPRECATED) Uroporphyrinogen-III decarboxylase) Apr 2008
Automated Process Approved IPR038071 (IPR038071 UROD/MetE-like superfamily) Jul 2018
Automated Process Approved PF01208 (PF01208 Uroporphyrinogen decarboxylase (URO-D)) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0006779 porphyrin-containing compound biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000257
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004853 uroporphyrinogen decarboxylase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000257
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Automated Process Approved name hemE Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 MG1655 		Sep 2007
Person Approved synonym ECK3989 Published Annotation - PubMed ID: 16397293 Jan 2006
Automated Process Approved synonym hemC Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW3961 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3997 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product uroporphyrinogen decarboxylase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name uroporphyrinogen decarboxylase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Person Approved EnteroFam EnteroFam0013066: Trusted threshold=1064.5; 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-0001555
Reference: EnteroFams 		Jan 2006
Automated Process Approved protein family IPR006361 Uroporphyrinogen decarboxylase HemE Protein Sequence Similarity - InterPro Domain: IPR006361
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR000257 Uroporphyrinogen decarboxylase (URO-D) Protein Sequence Similarity - InterPro Domain: IPR000257
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR038071 UROD/MetE-like superfamily Protein Sequence Similarity - InterPro Domain: IPR038071
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF01208 Uroporphyrinogen decarboxylase (URO-D) Protein Sequence Similarity - PFAM Model Name: PF01208
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR014670 (DEPRECATED) Uroporphyrinogen-III decarboxylase Protein Sequence Similarity - InterPro Domain: IPR014670
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 4.1.1.37 Published Annotation - Swiss-Prot Accession Number: P29680 Feb 2006
Person Uncurated MultiFun 1.5.3.12 (metabolism; building block biosynthesis; cofactor, small molecule carrier; heme, porphyrine) 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 GI:2367337 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P29680 Published Annotation - Swiss-Prot Accession Number: P29680 Jan 2005
Automated Process Approved db xref GeneID:948497 Published Annotation - Entrez Gene Database ID: 948497
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref UniProtKB/Swiss-Prot:P29680 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0013066 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG11543 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved function enzyme; Biosynthesis of cofactors, carriers: Heme, porphyrin Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Automated Process Approved protein id AAC76971.1 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 iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 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:0006779 porphyrin-containing compound biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000257
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004853 uroporphyrinogen decarboxylase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000257
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-0001555 hemE CDS
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0000235 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000664 hemE CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000554 hemE CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0001396 hemE CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000683 hemE CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0000471 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0003003 CDS
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000271 hemE CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003949 hemE CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004244 hemE CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000275 hemE CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0009022 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0014926 hemE CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000241 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000521 hemE CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0296805 hemE CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0000334 hemE CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0000188 hemE CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001768 hemE CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0009148 hemE CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004258 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006985 hemE CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004054 hemE CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004852 hemE CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010210 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0009794 hemE CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009086 hemE pseudogene
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081160 hemE CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004637 hemE CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005192 hemE CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006073 hemE CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0010413 hemE CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004590 hemE CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008976 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0006538 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008795 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007308 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006955 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0010150 hemE CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010297 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0009945 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008113 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0010518 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0010872 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0010120 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006121 hemE CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0010618 hemE CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029163 hemE CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0009588 hemE CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008920 hemE CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0003891 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003697 hemE CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003357 hemE CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004696 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004684 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004509 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004608 hemE CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178723 hemE CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004381 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004439 hemE CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135028 hemE CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001834 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0003831 hemE CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003936 hemE CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001032 hemE CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0004428 hemE CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002634 hemE CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0008787 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0003337 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0004465 hemE CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0003472 hemE CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0000514 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0000239 hemE CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0004146 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0007984 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000011 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0290959 hemE CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0007234 hemE CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0060447 hemE CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0000157 hemE CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0000077 hemE CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0001374 hemE CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0004704 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0137889 hemE CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0005196 hemE CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008574 hemE CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0003652 CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0004759 hemE CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008814 hemE CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0013071 hemE CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0010461 hemE CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0008887 hemE CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008853 hemE CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0008691 hemE CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0008482 hemE CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0008647 hemE CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007965 hemE CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008847 hemE CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0009102 hemE CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0004041 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0004000 hemE CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0005181 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0004198 hemE CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0008842 hemE CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008442 hemE CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0008732 hemE CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112834 hemE CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0085186 hemE CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0005014 hemE CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0102822 hemE CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0004991 hemE CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0009244 hemE CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0009009 hemE CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0000666 hemE CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0263986 hemE CDS
Person Approved Go view Shigella boydii 227 ADV-0004374 hemE CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0009908 hemE CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0007656 hemE CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004218 hemE CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074890 hemE CDS
Person Approved Go view Shigella flexneri 301 ABT-0090287 hemE CDS
Automated Process Uncurated Go view Shigella flexneri 8401 BAG-0004324 hemE CDS
Person Approved Go view Shigella sonnei 046 ADD-0004534 hemE CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0000357 VC0332 CDS
Person Uncurated Go view Wigglesworthia morsitans AEQ-0000032 hemE CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0001029 hemE CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0002761 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0000938 hemE CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0003925 hemE CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003079 CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0241714 hemE CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0004565 hemE CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0004306 hemE CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0008529 hemE CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0003640 hemE CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0127827 hemE CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0008571 hemE CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0008725 hemE CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0002345 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0007570 hemE CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0008147 hemE CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0030116 hemE CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0009028 hemE CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000296 hemE CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0004483 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0008730 hemE CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007877 hemE CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0000321 hemE CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000373 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0000410 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0000130 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000621 hemE 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 4192716 to 4203780
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0023907thiSCDScomplement41926374192837Upstream
ABE-0013053thiFCDScomplement41928214193576Upstream
ABE-0013055thiECDScomplement41935694194204Upstream
ABE-0013057thiCCDScomplement41942044196099Upstream
ABE-0013059rsdCDScomplement41963324196808Upstream
ABE-0013063nudCCDSforward41969034197676Upstream
ABE-0013066hemECDSforward41977164198780Matches
ABE-0013068nfiCDSforward41987904199461Downstream
ABE-0013070yjaGCDSforward41995044200094Downstream
ABE-0013077hupACDSforward42002814200553Downstream
ABE-0013079yjaHCDSforward42005664201261Downstream
ABE-0013081zraPCDScomplement42012634201688Downstream
ABE-0013088zraSCDSforward42019264203323Downstream
ABE-0013093zraRCDSforward42033204204645Downstream
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.