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

ABE-0003472 (dgcT) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0003472 showshow history
Names
dgcT JW5143 ECK1015 ycdT b1025
Product
putative diguanylate cyclase
Type
CDS
Location
# Contig Strand Left Right Length (b.p.) Length (a.a.)
1 Chromosome forward 1092876 1094234 1359 453
Sequence

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Context

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Protein Families to toptop
Author Approval Family Annotated
Automated Process Approved IPR000160 (IPR000160 GGDEF domain) Apr 2008
Automated Process Approved IPR033424 (IPR033424 Membrane-associated sensor domain) Jul 2018
Automated Process Approved IPR029787 (IPR029787 Nucleotide cyclase) Jul 2018
Automated Process Approved PF17158 (PF17158 Membrane-associated sensor, integral membrane domain) Jul 2018
Automated Process Approved PF00990 (PF00990 Diguanylate cyclase, GGDEF domain) Jul 2018
Gene Ontology to toptop
Author Approval Type Annotation Evidence Annotated
Automated Process Uncurated GO cellular component GO:0005886 plasma membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Uncurated name dgcT Published Annotation - PubMed ID: 26148715
Reference: Escherichia coli K-12 MG1655 		Sep 2018
Person Approved synonym ECK1015 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym JW5143 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ycdT Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved locus tag b1025 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product putative diguanylate cyclase Published Annotation - PubMed ID: 16397293
Reference: Escherichia coli K-12 		Oct 2021
Automated Process Approved alternate product name diguanylate cyclase, membrane-anchored Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated alternate product name putative transmembrane protein Published Annotation - Database Name: GenProtEC Jan 2006
Protein Family
Automated Process Approved protein family IPR000160 GGDEF domain Protein Sequence Similarity - InterPro Domain: IPR000160
Reference: Escherichia coli K-12 MG1655 		Apr 2008
Automated Process Approved protein family IPR033424 Membrane-associated sensor domain Protein Sequence Similarity - InterPro Domain: IPR033424
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF00990 Diguanylate cyclase, GGDEF domain Protein Sequence Similarity - PFAM Model Name: PF00990
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family IPR029787 Nucleotide cyclase Protein Sequence Similarity - InterPro Domain: IPR029787
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Automated Process Approved protein family PF17158 Membrane-associated sensor, integral membrane domain Protein Sequence Similarity - PFAM Model Name: PF17158
Reference: Escherichia coli K-12 MG1655 		Jul 2018
Other
Person Uncurated MultiFun 3.1.4 (regulation; type of regulation; regulation level unknown) 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 EcoGene:EG13866 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref ASAP:ABE-0003472 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GeneID:945593 Published Annotation - Entrez Gene Database ID: 945593
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Person Approved db xref UniProtKB:P75908 Published Annotation - Swiss-Prot Accession Number: P75908 Jan 2005
Automated Process Approved db xref UniProtKB/Swiss-Prot:P75908 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref GI:1787262 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved protein id AAC74110.1 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Uncurated subcellular localization Cytoplasmic Membrane Predicted by PSORTb - PSORTb Final_Score: 10.00
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:0005886 plasma membrane GO Inferred from Electronic Annotation - PubMed ID: 15501914
Reference: Escherichia coli K-12 MG1655 		Feb 2008
Comparative to toptop
Author Approval Details Genome Feature Name Type
Member
Automated Process Uncurated Go view OrthoMCL (14 enterobacteria) AMM-0005507 CDS
Automated Process Uncurated Go view OrthoMCL (205 gammaproteobacteria) APP-0004202 ycdT CDS
Automated Process Uncurated Go view OrthoMCL (307 Enterobacteriaceae) ATM-0004391 dgcT CDS
Automated Process Uncurated Go view OrthoMCL (42 Serratia) BEZ-0009480 ycdT CDS
Automated Process Uncurated Go view OrthoMCL (UW draft) CQJ-0003875 dgcT CDS
Ortholog
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0007255 CDS
Automated Process Uncurated Go view Escherichia coli 536 (UPEC) AEF-0001033 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0005454 CDS
Automated Process Uncurated Go view Escherichia coli APEC O1 (APEC) AEG-0000951 ycdT CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0008409 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008042 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0077258 dgcT CDS
Automated Process Uncurated Go view Escherichia coli DEC7E (UM-IGS draft) CFX-0001114 ycdT CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0009425 CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0008322 CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0005588 CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005104 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0009976 CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0009014 CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0007620 CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0005533 CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0006107 CDS
Automated Process Uncurated Go view Escherichia coli EC4196 (EHEC) BAX-0006376 CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0009878 CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0006309 CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0006964 CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0006380 CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006891 CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0025332 ycdT CDS
Automated Process Uncurated Go view Escherichia coli F11 (UPEC) ADQ-0007495 ycdT CDS
Automated Process Approved Go view Escherichia coli HS ADR-0005820 CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0001037 ycdT CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR68 CGA-0001329 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR71 CGB-0001322 CDS
Automated Process Uncurated Go view Escherichia coli MOD1-ECOR8 CFZ-0001279 CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0001116 CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0131199 ycdT CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0000591 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0001091 ycdT 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 1087876 to 1099234
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0003467pgaBCDScomplement10878391089857Upstream
ABE-0003469pgaACDScomplement10898661092289Upstream
ABE-0003472dgcTCDSforward10928761094234Matches
ABE-0003473mobile_elementcomplement10942451095502Downstream
ABE-0003475insF-4CDScomplement10942751095141Downstream
ABE-0003477insE-4CDScomplement10951381095437Downstream
ABE-0003486ymdEpseudogeneforward10955031095846Downstream
ABE-0003489ycdUCDSforward10958431096829Downstream
ABE-0003498serXtRNAcomplement10975651097652Downstream
ABE-0003503ghrACDSforward10978861098824Downstream
ABE-0003508ycdXCDSforward10988791099616Downstream
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.