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

ABE-0013063 (nudC) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0013063 showshow history
Names
nudC JW5548 ECK3988 yjaD b3996
Product
NADH pyrophosphatase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 4196903 4197676 774 258
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Person Approved ADX-0001554
EnteroFam0013063: Trusted threshold=694; 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 IPR000086 (IPR000086 NUDIX hydrolase domain) Apr 2008
Automated Process Approved IPR015375 (IPR015375 NADH pyrophosphatase-like, N-terminal) Apr 2008
Automated Process Approved IPR015376 (IPR015376 Zinc ribbon, NADH pyrophosphatase) Apr 2008
Automated Process Approved IPR015797 (IPR015797 NUDIX hydrolase-like domain superfamily) Apr 2008
Automated Process Approved PF00293 (PF00293 NUDIX domain) Jul 2018
Automated Process Approved PF09297 (PF09297 NADH pyrophosphatase zinc ribbon domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
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:0046872 metal ion binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR015376
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved GO molecular function GO:0016787 hydrolase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000086
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Automated Process Approved name nudC Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 MG1655 		Sep 2007
Person Approved synonym ECK3988 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW5548 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym yjaD Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved locus tag b3996 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product NADH pyrophosphatase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated alternate product name conserved hypothetical protein, MutT-like protein Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Person Approved EnteroFam EnteroFam0013063: Trusted threshold=694; 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-0001554
Reference: EnteroFams 		Jan 2006
Automated Process Approved protein family IPR000086 NUDIX hydrolase domain Protein Sequence Similarity - InterPro Domain: IPR000086
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR015375 NADH pyrophosphatase-like, N-terminal Protein Sequence Similarity - InterPro Domain: IPR015375
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR015376 Zinc ribbon, NADH pyrophosphatase Protein Sequence Similarity - InterPro Domain: IPR015376
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF09297 NADH pyrophosphatase zinc ribbon domain Protein Sequence Similarity - PFAM Model Name: PF09297
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR015797 NUDIX hydrolase-like domain superfamily Protein Sequence Similarity - InterPro Domain: IPR015797
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family PF00293 NUDIX domain Protein Sequence Similarity - PFAM Model Name: PF00293
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Automated Process Uncurated EC number 3.-.-.- Published Annotation - Database Name: EC2GO: GO:0016787
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved EC number 3.6.1.22 Published Annotation - Swiss-Prot Accession Number: P32664 Feb 2006
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 UniProtKB/Swiss-Prot:P32664 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:48994995 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P32664 Published Annotation - Swiss-Prot Accession Number: P32664 Jan 2005
Automated Process Approved db xref EcoGene:EG11702 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948498 Published Annotation - Entrez Gene Database ID: 948498
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0013063 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAT48238.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved sequence correction version m56: R33 to A Experimental - GenBank Accession Number: AG613362
Reference: Escherichia coli 		May 2004
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 iAF1260 Experimental - PubMed ID: 17593909
Reference: Escherichia coli K-12 MG1655 		Jan 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 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 Approved GO molecular function GO:0016787 hydrolase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR000086
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Uncurated GO molecular function GO:0046872 metal ion binding GO Inferred from Electronic Annotation - Database Name:Identifier: InterPro2GO: IPR015376
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Person Approved Go view EnteroFams ADX-0001554 nudC CDS
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0000234 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000846 nudC CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0001185 nudC CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0002039 nudC CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000906 nudC CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0000472 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0003002 CDS
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000270 CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0003950 CDS
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004245 nudC CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0000276 nudC CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0009023 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0014924 nudC CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000240 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000520 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0296802 nudC CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0000333 yjaD CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0000187 nudC CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001769 nudC CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0009147 nudC CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004257 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0006986 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0004053 nudC CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0004851 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010211 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0009793 nudC CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0009087 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0081159 nudC CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004636 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0005191 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006072 nudC CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0010412 nudC CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004589 nudC CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008974 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0006537 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008794 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007307 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0006954 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0010151 nudC CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010296 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0009946 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0008112 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0010519 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0010871 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0010119 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006122 nudC CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0010617 nudC CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0029162 nudC CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0009587 nudC CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008919 nudC CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0003890 nudC CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003696 nudC CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003358 nudC CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004697 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004685 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004510 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004607 nudC CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178722 nudC CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004380 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004438 nudC CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0135027 nudC CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001833 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0003832 nudC CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003935 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001031 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0004427 nudC CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002633 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0008788 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0003336 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0004464 nudC CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0003471 nudC CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0000515 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0000238 nudC CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0004147 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0007983 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000012 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0290960 nudC CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0007233 yjaD CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0060446 nudC CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0000147 nudC CDS
Person Approved Go view Pectobacterium carotovorum WPP14 ADT-0000076 nudC CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0001373 nudC CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0004703 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0137886 nudC CDS
Person Uncurated Go view Pseudomonas syringae pv. tomato DC3000 ADG-0002767 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008573 nudC CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0004758 yjaD CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008813 nudC CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0013066 yjaD CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0010465 yjaD CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0008888 nudC CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008852 nudC CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0008690 nudC CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0008483 nudC CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0008648 nudC CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007964 nudC CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008846 nudC CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0009103 nudC CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0004040 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0003999 nudC CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0005180 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0004197 nudC CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0008843 nudC CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008441 nudC CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0008731 nudC CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112838 nudC CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0085187 nudC CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0005013 nudC CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0102819 nudC CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0004992 nudC CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0009245 nudC CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0009008 nudC CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0000667 CDS
Person Approved Go view Shigella boydii 227 ADV-0004373 yjaD CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0009907 nudC CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0007655 nudC CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004219 yjaD CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074891 nudC CDS
Person Approved Go view Shigella flexneri 301 ABT-0090286 nudC CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0004323 yjaD CDS
Person Approved Go view Shigella sonnei 046 ADD-0004533 nudC CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0000356 VC0331 CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0001024 CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0002762 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0000934 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0003926 nudC CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0003919 nudC CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003080 CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0241716 nudC CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0004563 CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0004308 nudC CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0008531 CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0003638 nudC CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0127832 nudC CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0008569 CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0008723 CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0002343 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0007568 CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0008145 CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0030113 nudC CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0009026 CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000294 nudC CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0004485 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0008732 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0007879 CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0000319 nudC CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000371 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0000408 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0000121 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000622 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 4191903 to 4202676
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0013050thiGCDScomplement41918654192635Upstream
ABE-0023907thiSCDScomplement41926374192837Upstream
ABE-0013053thiFCDScomplement41928214193576Upstream
ABE-0013055thiECDScomplement41935694194204Upstream
ABE-0013057thiCCDScomplement41942044196099Upstream
ABE-0013059rsdCDScomplement41963324196808Upstream
ABE-0013063nudCCDSforward41969034197676Matches
ABE-0013066hemECDSforward41977164198780Downstream
ABE-0013068nfiCDSforward41987904199461Downstream
ABE-0013070yjaGCDSforward41995044200094Downstream
ABE-0013077hupACDSforward42002814200553Downstream
ABE-0013079yjaHCDSforward42005664201261Downstream
ABE-0013081zraPCDScomplement42012634201688Downstream
ABE-0013088zraSCDSforward42019264203323Downstream
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.