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

ABE-0006928 (gatC) - Escherichia coli K-12 MG1655 - Feature Annotation

ASAP ID
ABE-0006928 showshow history
Names
gatC JW2076 ECK2085 b2092
Product
galactitol-specific enzyme IIC component of PTS (pseudogene)
Type
pseudogene showshow history
Location
# Contig Strand Left Right Length (b.p.)
1 Chromosome complement 2172921 2174278 1358
Sequence

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Context

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Annotations to toptop
Author Approval Type Annotation Evidence Annotated
Nomenclature
Person Approved name gatC Published Annotation - GenBank Accession Number: U00096
Reference: Escherichia coli MG1655 		Oct 1998
Person Approved synonym JW2076 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved synonym ECK2085 Published Annotation - PubMed ID: 16397293 Jan 2006
Person Approved locus tag b2092 Unique Identifier - Origin: Guy Plunkett III, guy@genome.wisc.edu May 2004
Product
Person Uncurated product galactitol-specific enzyme IIC component of PTS (pseudogene) Nucleotide Sequence Similarity - ASAP FeatureID: ADY-0002152
Reference: Escherichia coli K-12 W3110 		Oct 2013
Other
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:P69831 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved db xref EcoGene:EG12416 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Approved db xref UniProtKB:P69831 Published Annotation - Swiss-Prot Accession Number: P69831 Jan 2006
Automated Process Approved db xref GeneID:946603 Published Annotation - Entrez Gene Database ID: 946603
Reference: Escherichia coli K-12 MG1655 		Jun 2009
Automated Process Approved db xref ASAP:ABE-0006928 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated note Frameshift mutation relative to Escherichia coli K-12 W3110 (ASAP:ADY-0002152); has termination codon at position 312. Unpublished Sequence Analysis - Author Name, Email; Comment: Eric Neeno-Eckwall, ecneenoeckwa@wisc.edu
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Automated Process Approved note pseudogene, galactitol-specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol-specific enzyme IIC; GO_component: GO:0009274 - peptidoglycan-based cell wall; GO_component: GO:0019866 - organelle inner membrane; GO_process: GO:0016052 - carbohydrate catabolic process Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Person Uncurated pseudo Published Annotation in EcoGene - EG Number: EG12416
Reference: Escherichia coli K-12 MG1655 		Oct 2013
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 iMC1010 Experimental - PubMed ID: 15129285
Reference: Escherichia coli K-12 MG1655 		Mar 2009
Person Uncurated subsystem component of in silico model iJR904 Experimental - PubMed ID: 12952533
Reference: Escherichia coli K-12 MG1655 		Feb 2009
Automated Process Approved transl table 11 Published Annotation - GenBank Accession Number: U00096.3
Reference: Escherichia coli K-12 MG1655 		Oct 2013
Comparative to toptop
Author Approval Details Genome Feature Name Type
Ortholog
Automated Process Uncurated Go view Escherichia coli 101-1 (EAEC) BAB-0005047 gatC CDS
Automated Process Approved Go view Escherichia coli 536 (UPEC) AEF-0002148 CDS
Automated Process Uncurated Go view Escherichia coli 53638 (EIEC) ADP-0009297 gatC CDS
Automated Process Approved Go view Escherichia coli APEC O1 (APEC) AEG-0002048 gatC CDS
Automated Process Approved Go view Escherichia coli ATCC 11775 [T] AMC-0002236 CDS
Automated Process Approved Go view Escherichia coli ATCC 8739 AEM-0007194 CDS
Automated Process Uncurated Go view Escherichia coli B171 (EPEC) ADN-0008558 gatC CDS
Automated Process Uncurated Go view Escherichia coli B7A (ETEC) ADK-0008354 CDS
Person Approved Go view Escherichia coli CFT073 (UPEC) ABR-0078751 gatC CDS
Automated Process Uncurated Go view Escherichia coli E110019 (EPEC) ADM-0007709 gatC CDS
Automated Process Uncurated Go view Escherichia coli E22 (EPEC) ADL-0006489 gatC CDS
Automated Process Approved Go view Escherichia coli E2348/69 (EPEC) BCI-0002380 gatC CDS
Automated Process Approved Go view Escherichia coli E24377A (ETEC) ADO-0006817 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4024 (EHEC) BBI-0005783 CDS
Automated Process Uncurated Go view Escherichia coli EC4042 (EHEC) BBA-0006471 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4045 (EHEC) BBB-0004998 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4076 (EHEC) BAZ-0008951 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4113 (EHEC) BAY-0008250 gatC CDS
Automated Process Approved Go view Escherichia coli EC4115 (EHEC) BAS-0007911 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4206 (EHEC) BAW-0005758 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4401 (EHEC) BAV-0008294 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4486 (EHEC) BAU-0009487 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC4501 (EHEC) BAT-0007417 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC508 (EHEC) BBJ-0006723 gatC CDS
Automated Process Uncurated Go view Escherichia coli EC869 (EHEC) BBC-0009327 gatC CDS
Person Approved Go view Escherichia coli EDL933 (EHEC) ABH-0026981 gatC CDS
Automated Process Uncurated Go view Escherichia coli F11 (UPEC) ADQ-0004915 gatC CDS
Automated Process Approved Go view Escherichia coli HS ADR-0006901 gatC CDS
Person Uncurated Go view Escherichia coli K-12 DH10B AEC-0001966 gatC CDS
Person Approved Go view Escherichia coli K-12 W3110 ADY-0002152 gatC CDS
Automated Process Approved Go view Escherichia coli SE11 AFS-0002401 CDS
Automated Process Approved Go view Escherichia coli SMS-3-5 AFT-0000971 gatC CDS
Person Approved Go view Escherichia coli Sakai (EHEC) ACA-0132900 gatC CDS
Automated Process Uncurated Go view Escherichia coli TW14588 (EHEC) BBK-0001914 CDS
Automated Process Approved Go view Escherichia coli UTI89 (UPEC) AEA-0002372 gatC CDS
Person Uncurated Go view Klebsiella pneumoniae subsp. pneumoniae MGH 78578 AEP-0003597 gatC CDS
Automated Process Uncurated Go view Leclercia adecarboxylata ATCC 23216 [T] AME-0001859 CDS
Automated Process Uncurated Go view Salmonella Agona SL483 BBX-0007614 CDS
Person Uncurated Go view Salmonella Choleraesuis SC-B67 ADB-0003740 ptkC CDS
Automated Process Uncurated Go view Salmonella Dublin CT_02021853 BCB-0007866 CDS
Automated Process Uncurated Go view Salmonella Enteritidis P125109 BCF-0010088 CDS
Automated Process Uncurated Go view Salmonella Gallinarum 287/91 BCG-0009544 CDS
Automated Process Uncurated Go view Salmonella Hadar RI_05P066 BBT-0007195 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL476 BBV-0007914 CDS
Automated Process Uncurated Go view Salmonella Heidelberg SL486 BBW-0006833 CDS
Automated Process Uncurated Go view Salmonella Javiana GA_MM04042433 BCA-0005833 CDS
Automated Process Uncurated Go view Salmonella Kentucky CDC 191 BBZ-0006296 CDS
Automated Process Uncurated Go view Salmonella Kentucky CVM29188 BBP-0007008 CDS
Automated Process Uncurated Go view Salmonella Newport SL254 BBQ-0007875 CDS
Automated Process Uncurated Go view Salmonella Newport SL317 BBR-0005189 CDS
Automated Process Uncurated Go view Salmonella Paratyphi A AKU_12601 BCH-0003162 CDS
Person Uncurated Go view Salmonella Paratyphi A ATCC 9150 ADA-0003128 gatC CDS
Automated Process Uncurated Go view Salmonella Paratyphi B SPB7 BCC-0004086 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA23 BBN-0008035 CDS
Automated Process Uncurated Go view Salmonella Saintpaul SARA29 BBM-0007293 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund CVM19633 BBO-0007520 CDS
Automated Process Uncurated Go view Salmonella Schwarzengrund SL480 BBY-0007192 CDS
Person Approved Go view Salmonella Typhi CT18 ABX-0112263 gatC CDS
Person Uncurated Go view Salmonella Typhi Ty2 ABS-0084900 gatC CDS
Person Uncurated Go view Salmonella Typhimurium LT2 [T] ABU-0100136 CDS
Automated Process Uncurated Go view Salmonella Virchow SL491 BBS-0005971 CDS
Automated Process Uncurated Go view Salmonella Weltevreden SL484 BBU-0006051 CDS
Person Uncurated Go view Shigella boydii 227 ADV-0000991 gatC CDS
Automated Process Approved Go view Shigella boydii BS512 ADJ-0006543 gatC CDS
Automated Process Uncurated Go view Shigella dysenteriae 1012 BAA-0003645 gatC CDS
Person Approved Go view Shigella flexneri 2457T ABQ-0073402 gatC CDS
Person Approved Go view Shigella flexneri 301 ABT-0088433 gatC CDS
Automated Process Approved Go view Shigella flexneri 8401 BAG-0002304 gatC CDS
Person Approved Go view Shigella sonnei 046 ADD-0002344 gatC 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)
Strains to toptop

Strains with mutations in this feature.

Strain NameStrain TypeStrain InformationStrain RequestFeatureIDNameMutation DetailsExperiments Using StrainSubmitter
FB20611mutantTn5 InsertionRequest the StrainABE-0006928gatCgatC::Tn5KAN-2 at position 535 in Plus orientation ,+ pKD460Blattner Laboratory
FB20612mutantTn5 InsertionRequest the StrainABE-0006928gatCgatC::Tn5KAN-2 at position 535 in Plus orientation ,- pKD460Blattner Laboratory
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 2167921 to 2179278
FeatureIDNameFeature TypeStrandLeft EndRight EndRelationship
ABE-0000001sourceforward14641652Contains
ABE-0006907yegRCDScomplement21679892168306Downstream
ABE-0006911yegSCDSforward21687122169611Downstream
ABE-0285490repeat_regionforward21696502169683Downstream
ABE-0006914gatR_2CDSpcomplement21696932170139Downstream
ABE-0285099gatRpseudogenecomplement21696932170167(Interval #2) Downstream
ABE-0006915mobile_elementforward21701712171428Downstream
ABE-0006917insE-5CDSforward21702362170535Downstream
ABE-0006919insF-5CDSforward21705322171398Downstream
ABE-0006921gatR_1CDSpcomplement21713952171727Downstream
ABE-0285099gatRpseudogenecomplement21714292171727(Interval #1) Downstream
ABE-0006924gatDCDScomplement21718332172873Downstream
ABE-0006928gatCpseudogenecomplement21729212174278Matches
ABE-0006930gatBCDScomplement21742822174566Upstream
ABE-0006932gatACDScomplement21745972175049Upstream
ABE-0006934gatZCDScomplement21750592176321Upstream
ABE-0006938gatYCDScomplement21763502177204Upstream
ABE-0285491repeat_regionforward21774082177484Upstream
ABE-0006941fbaBCDScomplement21775122178564Upstream
ABE-0006946yegTCDSforward21788212180098Upstream
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.