Escherichia coli K-12 MG1655
About ASAP Data Release Policy University of Wisconsin—Madison
Home    Overview    Annotations    BLAST    Downloads    Comparative Genomics    Experiments    Strains    Help (this script)    User: guest  / Log On   
Working With: Genome: Escherichia coli K-12 MG1655 Version: v3

ABE-0012425 (hemD) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0012425 showshow history
Names
hemD JW3776 ECK3798 b3804
Product
uroporphyrinogen III synthase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 3989088 3989828 741 247
Sequence

Get full DNA or protein sequence

View sequence with flanking regions: bases upstream and bases downstream

Context

Browse sequence in GaPP

You last hovered over feature (none)
Protein Families to toptop
Author Approval Family Annotated
Person Approved ADX-0001448
EnteroFam0012425: Trusted threshold=585.3; 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 IPR003754 (IPR003754 Tetrapyrrole biosynthesis, uroporphyrinogen III synthase) Apr 2008
Automated Process Approved IPR036108 (IPR036108 Tetrapyrrole biosynthesis, uroporphyrinogen III synthase superfamily) Jul 2018
Automated Process Approved PF02602 (PF02602 Uroporphyrinogen-III synthase HemD) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Approved GO biological process GO:0033014 tetrapyrrole biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004852 uroporphyrinogen-III synthase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Automated Process Approved name hemD Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 MG1655 		Sep 2007
Person Approved synonym ECK3798 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW3776 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3804 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product uroporphyrinogen III synthase Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved alternate product name uroporphyrinogen III synthase Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Protein Family
Person Approved EnteroFam EnteroFam0012425: Trusted threshold=585.3; 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-0001448
Reference: EnteroFams 		Jan 2006
Automated Process Approved protein family IPR036108 Tetrapyrrole biosynthesis, uroporphyrinogen III synthase superfamily Protein Sequence Similarity - InterPro Domain: IPR036108
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF02602 Uroporphyrinogen-III synthase HemD Protein Sequence Similarity - PFAM Model Name: PF02602
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR003754 Tetrapyrrole biosynthesis, uroporphyrinogen III synthase Protein Sequence Similarity - InterPro Domain: IPR003754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Other
Person Approved EC number 4.2.1.75 Published Annotation - Swiss-Prot Accession Number: P09126 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
Person Approved db xref UniProtKB:P09126 Published Annotation - Swiss-Prot Accession Number: P09126 Jan 2005
Automated Process Approved db xref ASAP:ABE-0012425 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1790236 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:948587 Published Annotation - Entrez Gene Database ID: 948587
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref UniProtKB/Swiss-Prot:P09126 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG10430 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 AAC76807.1 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 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
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 Approved GO biological process GO:0033014 tetrapyrrole biosynthetic process GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003754
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0004852 uroporphyrinogen-III synthase activity GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR003754
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-0001448 hemD CDS
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0000811 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000607 hemD CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000520 hemD CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0000886 hemD CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000642 hemD CDS
Ortholog
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000219 CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0004014 CDS
Automated Process Approved Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0004469 hemD CDS
Automated Process Approved Go view Citrobacter freundii ATCC 8090 [T] AVI-0000465 hemD CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0004595 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0015004 hemD CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0003986 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0000102 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0296571 hemD CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0000257 hemD CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0000237 hemD CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0001698 hemD CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007899 hemD CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0004038 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0007242 hemD CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003841 hemD CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0000385 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0010424 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008937 hemD CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0006219 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0080919 hemD CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0004219 CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004848 CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0006264 hemD CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0009612 hemD CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0004365 hemD CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0008752 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0002615 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0008571 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0007084 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007275 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0008493 hemD CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0010075 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0008250 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0007887 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005673 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0007514 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0009479 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0008841 hemD CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006954 hemD CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028942 hemD CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0009563 hemD CDS
Automated Process Approved Go view Escherichia coli HS ADR-0008711 hemD CDS
Automated Process Uncurated Go view Escherichia coli J96 (UPEC) CQK-0004358 hemD CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0003532 hemD CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003548 hemD CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0004500 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0004481 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0004323 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0004371 hemD CDS
Automated Process Uncurated Go view Escherichia coli RS218 (NMEC) ACK-0178493 hemD CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0004167 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0004165 hemD CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0134824 hemD CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0004778 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0004372 hemD CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003834 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0000939 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0004351 hemD CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0002249 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0004614 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0003271 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0000159 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0003402 hemD CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0000577 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0000168 hemD CDS
Automated Process Approved Go view Pantoea ananatis PA13 APK-0004218 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0007921 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0003598 CDS
Automated Process Approved Go view Pantoea stewartii DC283 ACV-0288622 hemD CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0007158 hemD CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0064515 hemD CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0002455 hemD CDS
Person Approved Go view Pectobacterium carotovorum WPP14 ADT-0002247 hemD CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0003418 hemD CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0009258 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0147383 hemD CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0008331 hemD CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0003895 CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0004500 hemD CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0008570 hemD CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0012350 hemD CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0010692 hemD CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007615 hemD CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0008624 hemD CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0008221 hemD CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0007533 hemD CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0008145 hemD CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007719 hemD CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0008572 hemD CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0008851 hemD CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003817 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0003776 hemD CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004905 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008746 hemD CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0008893 hemD CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0008217 hemD CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0007611 hemD CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112661 hemD CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0085082 hemD CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0004742 hemD CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0102126 hemD CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005226 hemD CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0008835 hemD CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0007977 hemD CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0000776 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0267962 hemD CDS
Person Approved Go view Shigella boydii 227 ADV-0004158 hemD CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0009680 hemD CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0006788 hemD CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0004451 hemD CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0075134 hemD CDS
Person Approved Go view Shigella flexneri 301 ABT-0090094 hemD CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003928 hemD CDS
Person Approved Go view Shigella sonnei 046 ADD-0004330 hemD CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0000126 VC0119 CDS
Person Uncurated Go view Wigglesworthia morsitans AEQ-0000398 hemD CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0000630 hemD CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0001934 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0000585 hemD CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0002504 hemD CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001713 hemD CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0003755 CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0241935 hemD CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0004640 hemD CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0000220 hemD CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0007646 hemD CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0003529 hemD CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0128257 hemD CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0008086 hemD CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0006476 hemD CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0000771 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0008470 hemD CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0007464 hemD CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0029986 hemD CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0006921 hemD CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000150 hemD CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0004156 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0008152 hemD CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0004132 hemD CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0000201 hemD CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0000233 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0004767 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0000322 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0000687 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 3984088 to 3994828
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0012408aslBCDSforward39829583984193Downstream
ABE-0285639repeat_regionforward39842203984323Downstream
ABE-0012411aslACDScomplement39843523986007Downstream
ABE-0047274glmZncRNAforward39864323986638Downstream
ABE-0012417hemYCDScomplement39866863987882Downstream
ABE-0012419hemXCDScomplement39878853989066Downstream
ABE-0012425hemDCDScomplement39890883989828Matches
ABE-0012427hemCCDScomplement39898253990766Overlaps Upstream
ABE-0012432cyaACDSforward39911533993699Upstream
ABE-0012435cyaYCDScomplement39937393994059Upstream
ABE-0285079yifLCDSforward39945223994725Upstream
ABE-0012442dapFCDSforward39947623995586Upstream
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.