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

ABE-0009961 (nudF) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0009961 showshow history
Names
nudF yzzG adpP rdsA trgB yqiE aspP ECK3025 JW3002 b3034
Product
ADP-ribose pyrophosphatase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome complement 3177281 3177910 630 210
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Person Approved ADX-0001110
EnteroFam0009961: Trusted threshold=558.9; 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 IPR004385 (IPR004385 Nucleoside diphosphate pyrophosphatase) Apr 2008
Automated Process Approved IPR000086 (IPR000086 NUDIX hydrolase domain) Apr 2008
Automated Process Approved IPR015797 (IPR015797 NUDIX hydrolase-like domain superfamily) Apr 2008
Automated Process Approved PF00293 (PF00293 NUDIX 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 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 Approved GO molecular function GO:0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004385
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved GO molecular function GO:0046872 metal ion binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004385
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name nudF Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym yqiE Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Jan 2006
Automated Process Approved synonym yzzG Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved synonym adpP Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved synonym rdsA Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved synonym JW3002 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Uncurated synonym trgB Published Annotation - PubMed ID: 10542272
Reference: Rhodobacter sphaeroides 		Sep 2007
Person Approved synonym aspP Published Annotation - Database Name: GenProtEC Jul 2002
Person Approved synonym ECK3025 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b3034 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Approved product ADP-ribose pyrophosphatase Published Annotation - PubMed ID: 16397293 Jan 2006
Protein Family
Person Approved EnteroFam EnteroFam0009961: Trusted threshold=558.9; 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-0001110
Reference: EnteroFams 		Jan 2006
Automated Process Approved protein family IPR004385 Nucleoside diphosphate pyrophosphatase Protein Sequence Similarity - InterPro Domain: IPR004385
Reference: Escherichia coli K-12 MG1655 		Apr 2008
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 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 3.6.1.- Published Annotation - Database Name: EC2GO: GO:0016818
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Person Approved EC number 3.6.1.13 Published Annotation - Swiss-Prot Accession Number: Q93K97 Feb 2006
Automated Process Uncurated EC number 3.-.-.- Published Annotation - Database Name: EC2GO: GO:0016787
Reference: Escherichia coli K-12 MG1655 		Jul 2018
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:Q93K97 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:Q93K97 Published Annotation - Swiss-Prot Accession Number: Q93K97 Jan 2006
Automated Process Approved db xref GeneID:947519 Published Annotation - Entrez Gene Database ID: 947519
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0009961 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1789412 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG12184 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC76070.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated regulation regulated by nutritional source; expression of nudF (referred to as trgB) is down-regulated in complex medium compared to glucose minimal medium, as determined by RT-PCR Experimental - PubMed ID: 11350954
Reference: Escherichia coli K-12 		Sep 2007
Person Uncurated regulation regulated by creC (ASAP:ABE-0014430); activation of nudF (referred to as trgB) expression under nutrient limiting conditions was not observed in a creC null mutant, as determined by RT-PCR Experimental - PubMed ID: 11350954
Reference: Escherichia coli K-12 		Sep 2007
Automated Process Uncurated subcellular localization Cytoplasmic Predicted by PSORTb - PSORTb Final_Score: 8.96
Reference: Escherichia coli K-12 MG1655 		Feb 2008
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:0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004385
Reference: Escherichia coli K-12 MG1655 		Apr 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 Approved GO molecular function GO:0046872 metal ion binding GO Inferred from Electronic Annotation - Database Name:Identifier: INTERPRO:IPR004385
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-0001110 nudF CDS
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0001237 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0000760 nudF CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0000783 nudF CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0001138 nudF CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0000737 nudF CDS
Ortholog
Automated Process Uncurated Go view Brenneria salicis ATCC 15712 [T] AMK-0001996 CDS
Automated Process Uncurated Go view Brenneria sp. EniD312 AKG-0003973 CDS
Automated Process Uncurated Go view Buttiauxella agrestis ATCC 33320 [T] APC-0000679 nudF CDS
Automated Process Uncurated Go view Cedecea davisae ATCC 33431 [T] ALZ-0000221 CDS
Automated Process Uncurated Go view Citrobacter amalonaticus ATCC 25405 [T] AUW-0000716 nudF CDS
Automated Process Uncurated Go view Citrobacter freundii ATCC 8090 [T] AVI-0004608 nudF CDS
Automated Process Uncurated Go view Dickeya chrysanthemi Ech1591 AFK-0008905 CDS
Person Approved Go view Dickeya dadantii 3937 ABF-0046536 nudF CDS
Automated Process Uncurated Go view Dickeya parazeae Ech586 AGC-0000337 CDS
Automated Process Uncurated Go view Enterobacter cloacae subsp. cloacae ATCC 13047 [T] (AToL DRAFT) AMB-0004649 CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC 49946 ACW-0305567 nudF CDS
Automated Process Uncurated Go view Erwinia amylovora ATCC BAA-2158 APN-0000521 yqiE CDS
Automated Process Uncurated Go view Erwinia tasmaniensis Et1/99 [T] AFI-0000469 yqiE CDS
Automated Process Uncurated Go view Escherichia albertii TW07627 AFX-0002470 CDS
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005726 CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0003156 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0008086 CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0003119 nudF CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0001146 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0006114 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0005537 CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0007807 pseudogene
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0079951 nudF CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0003497 nudF CDS
Automated Process Uncurated Go view Escherichia coli DEC9A (UM-IGS draft) CFY-0004098 nudF CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0005624 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0005571 CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0003547 nudF CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0007932 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0000310 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0007688 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0006205 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0008464 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005637 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0009184 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0005981 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0006989 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0005969 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006484 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0005792 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0005375 CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0006220 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0028064 nudF CDS
Automated Process Approved Go view Escherichia coli F11 (UPEC) ADQ-0007589 nudF CDS
Automated Process Approved Go view Escherichia coli HS ADR-0007893 CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0002831 nudF CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0003102 nudF CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0003665 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0003329 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0003504 CDS
Automated Process Uncurated Go view Escherichia coli Nissle 1917 AML-0003496 nudF CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0003377 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0003327 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0133979 nudF CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0005879 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0003477 yqiE CDS
Automated Process Uncurated Go view Ewingella americana ATCC 33852 [T] AMA-0003203 CDS
Person Uncurated Go view Hafnia alvei ATCC 13337 [T] AMD-0001045 CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0003457 yqiE CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0001760 CDS
Automated Process Uncurated Go view Musicola paradisiaca Ech703 AGA-0008665 CDS
Automated Process Uncurated Go view Pantoea agglomerans IG1 APM-0002565 CDS
Automated Process Uncurated Go view Pantoea agglomerans SL1-M5 ALY-0002836 CDS
Automated Process Uncurated Go view Pantoea ananatis AJ13355 AOV-0002672 nudF CDS
Automated Process Uncurated Go view Pantoea ananatis B1-9 APL-0001345 CDS
Automated Process Uncurated Go view Pantoea ananatis LMG 20103 AKB-0003468 nudF CDS
Automated Process Uncurated Go view Pantoea ananatis PA13 APK-0000730 CDS
Automated Process Uncurated Go view Pantoea sp. At-9b AGM-0011117 CDS
Automated Process Uncurated Go view Pantoea sp. aB AJV-0000215 CDS
Automated Process Uncurated Go view Pantoea stewartii DC283 ACV-0290473 nudF CDS
Automated Process Uncurated Go view Pantoea vagans C9-1 ALK-0006408 nudf3 CDS
Person Approved Go view Pectobacterium atrosepticum SCRI1043 ABL-0060549 nudF CDS
Automated Process Uncurated Go view Pectobacterium brasiliensis 1692 AED-0003081 nudF CDS
Person Uncurated Go view Pectobacterium carotovorum WPP14 ADT-0003478 nudF CDS
Automated Process Uncurated Go view Pectobacterium parmentieri WPP163 AFJ-0001023 nudF CDS
Automated Process Uncurated Go view Pectobacterium sp. PC1 AFL-0004826 CDS
Person Uncurated Go view Photorhabdus luminescens subsp. laumondii TTO1 [T] ACD-0145829 nudF CDS
Person Uncurated Go view Pseudomonas aeruginosa PA7 AES-0005700 CDS
Person Uncurated Go view Pseudomonas aeruginosa PAO1 AEW-0005047 aspP CDS
Person Uncurated Go view Pseudomonas aeruginosa UCBPP-PA14 AEX-0005361 aspP CDS
Person Uncurated Go view Pseudomonas entomophila L48 AEV-0004724 CDS
Person Uncurated Go view Pseudomonas fluorescens Pf-5 AEY-0000542 nudF CDS
Person Uncurated Go view Pseudomonas fluorescens PfO-1 AEZ-0000627 CDS
Person Uncurated Go view Pseudomonas mendocina ymp AFA-0000754 CDS
Person Uncurated Go view Pseudomonas putida F1 AFB-0005914 CDS
Person Uncurated Go view Pseudomonas putida GB-1 AFC-0019593 CDS
Person Uncurated Go view Pseudomonas putida KT2440 AFD-0005003 CDS
Person Uncurated Go view Pseudomonas putida W619 AFE-0005787 CDS
Person Uncurated Go view Pseudomonas savastanoi NCPPB 3335 AER-0004276 CDS
Person Uncurated Go view Pseudomonas stutzeri A1501 AFF-0003849 CDS
Person Uncurated Go view Pseudomonas syringae pv. phaseolicola 1448A AFH-0000549 CDS
Person Uncurated Go view Pseudomonas syringae pv. syringae B728a AFG-0001281 CDS
Person Approved Go view Pseudomonas syringae pv. tomato DC3000 ADG-0005051 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007533 CDS
Automated Process Uncurated Go view Salmonella Arizonae CDC 346-86 BCD-0004666 CDS
Person Approved Go view Salmonella Choleraesuis SC-B67 ADB-0003656 nudF CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0007789 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0009880 yqiE CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0009345 yqiE CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007317 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0007795 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006754 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0005754 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006217 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0006925 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0007801 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0005271 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003086 CDS
Person Approved Go view Salmonella Paratyphi A ATCC 9150 ADA-0003053 nudF CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0003991 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0007954 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007118 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007442 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0007363 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112131 nudF CDS
Person Approved Go view Salmonella Typhi Ty2 ABS-0084825 nudF CDS
Automated Process Uncurated Go view Salmonella Typhimurium 14028S AJR-0003864 nudF CDS
Person Approved Go view Salmonella Typhimurium LT2 [T] ABU-0099908 nudF CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0006047 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0006129 CDS
Automated Process Uncurated Go view Salmonella enterica CVM23701 BBL-0004684 CDS
Automated Process Uncurated Go view Serratia marcescens subsp. marcescens ATCC 13880 [T] AMF-0001619 CDS
Person Uncurated Go view Shewanella oneidensis MR-1 ACY-0267546 CDS
Person Uncurated Go view Shigella boydii 227 ADV-0003176 yqiE CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0008881 CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003964 CDS
Person Approved Go view Shigella dysenteriae 197 ADU-0003654 yqiE CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0074463 nudF CDS
Person Approved Go view Shigella flexneri 301 ABT-0089321 nudF CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0003280 yqiE CDS
Person Approved Go view Shigella sonnei 046 ADD-0003463 nudF CDS
Person Uncurated Go view Vibrio cholerae N16961 ADH-0002528 VC2435 CDS
Person Uncurated Go view Xenorhabdus nematophila ATCC 19061 [T] ADW-0007313 nudF CDS
Automated Process Uncurated Go view Yersinia bercovieri ATCC 43970 [T] AEK-0000285 CDS
Automated Process Uncurated Go view Yersinia enterocolitica 8081 BAH-0010515 CDS
Automated Process Uncurated Go view Yersinia frederiksenii ATCC 33641 [T] AEI-0001983 nudF CDS
Automated Process Uncurated Go view Yersinia intermedia ATCC 29909 [T] AEH-0001911 nudF CDS
Automated Process Uncurated Go view Yersinia mollaretii ATCC 43969 [T] AEJ-0001441 CDS
Person Approved Go view Yersinia pestis 91001 (biovar Microtus) ACQ-0241468 nudF CDS
Automated Process Uncurated Go view Yersinia pestis Angola (biovar Pestoides) ADI-0004387 CDS
Automated Process Uncurated Go view Yersinia pestis Antiqua (biovar Antiqua) BAE-0003744 nudF CDS
Automated Process Uncurated Go view Yersinia pestis B42003004 (biovar Antiqua) BAL-0006085 CDS
Automated Process Uncurated Go view Yersinia pestis CA88-4125 (biovar Orientalis) BAF-0002660 CDS
Person Approved Go view Yersinia pestis CO92 (biovar Orientalis) ABY-0117527 nudF CDS
Automated Process Uncurated Go view Yersinia pestis E1979001 (biovar Antiqua) BAM-0005039 CDS
Automated Process Uncurated Go view Yersinia pestis F1991016 (biovar Orientalis) BAQ-0005180 CDS
Automated Process Uncurated Go view Yersinia pestis FV-1 (biovar Orientalis) BAK-0000687 CDS
Automated Process Uncurated Go view Yersinia pestis IP275 (biovar Orientalis) BAC-0009311 CDS
Automated Process Uncurated Go view Yersinia pestis K1973002 (biovar Mediaevalis) BAO-0006348 CDS
Person Approved Go view Yersinia pestis KIM (biovar Mediaevalis) ABI-0033289 nudF CDS
Automated Process Uncurated Go view Yersinia pestis MG05-1020 (biovar Orientalis) BAP-0004380 CDS
Automated Process Uncurated Go view Yersinia pestis Nepal516 (biovar Antiqua) BAD-0000647 nudF CDS
Automated Process Uncurated Go view Yersinia pestis Pestoides F (biovar Pestoides) BAI-0000524 CDS
Automated Process Uncurated Go view Yersinia pestis UG05-0454 (biovar Antiqua) BAN-0004654 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis IP31758 ADS-0004517 CDS
Person Approved Go view Yersinia pseudotuberculosis IP32953 ACZ-0003508 nudF CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis PB1/+ AFV-0004225 CDS
Automated Process Uncurated Go view Yersinia pseudotuberculosis YPIII AFW-0000766 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 43003 APO-0007039 CDS
Automated Process Uncurated Go view Yokenella regensburgei ATCC 49455 [T] AMG-0002618 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 3172281 to 3182910
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0009946mdaBCDSforward31725303173111Downstream
ABE-0009948ygiNCDSforward31731423173456Downstream
ABE-0009950parECDScomplement31735043175396Downstream
ABE-0009953yqiACDScomplement31754253176006Downstream
ABE-0009957cpdACDScomplement31760063176833Downstream
ABE-0009959yqiBCDScomplement31768583177280Downstream
ABE-0009961nudFCDScomplement31772813177910Matches
ABE-0009965tolCCDSforward31781153179596Upstream
ABE-0009969ygiBCDSforward31797443180415Upstream
ABE-0009971ygiCCDSforward31804213181581Upstream
ABE-0285571repeat_regionforward31815903181613Upstream
ABE-0009973ygiDCDScomplement31816193182407Upstream
ABE-0009977zupTCDSforward31825503183323Upstream
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.