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ariR:Gene

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Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes Genetic Interactions Genetic Resources Accessions Links References Suggestions

Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

ariR

Mnemonic

Acid resistance, indole

Synonyms

ECK1153, b1166, JW1153, ymgB[1], JW1153, ymgB

Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

26.2 minutes 

MG1655: 1215592..1215858


REL606

NC_012967: 1216530..1216796


BW2952

NC_012759: 1104313..1104579


W3110

 

W3110: 1217946..1218212


Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

ymgB(del)::FRT-kan-FRT (Keio:JW1153)

deletion-insertion

deletion

PMID:16738554[2]

Shigen

CGSC9071[3]

ymgB(del)::FRT-kan-FRT

deletion-insertion

Sensitivity to

increased sensitivity to oxidative stress

PMID:17765265[4]

Fig. S2 - survival of stationary phase cells was approx. 20% of the ymgB+ parental strain after incubation in 30 mM H2O2 for 15 min at 37C

ymgB(del)::FRT-kan-FRT

deletion-insertion

Sensitivity to

increased sensitivity to acidic pH

PMID:17765265[4]

Fig. 1b - survival of stationary phase cells was approx. 3% of the ymgB+ parental strain after 1 h incubation in LB at pH 2.5 at 37C

Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW1153

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:gccCTTGAAGATACTACAATTCA

Primer 2:ccCATATCATCAGCTGTGTATCG

zcf-117::Tn10

Linked marker

CAG18463 = CGSC7363[3]

est. P1 cotransduction: 86% [6]

fadR13::Tn10

Linked marker

CAG18497 = CGSC7365[3]

est. P1 cotransduction: 51% [6]

Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:G6606

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14290

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003201

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945340

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4038

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003911

Escherichia coli str. K-12 substr. MG1655

Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. Baba, T et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2 2006.0008 PubMed EcoliWiki page
  3. 3.0 3.1 3.2 CGSC: The Coli Genetics Stock Center
  4. 4.0 4.1 Lee, J et al. (2007) Structure and function of the Escherichia coli protein YmgB: a protein critical for biofilm formation and acid-resistance. J. Mol. Biol. 373 11-26 PubMed EcoliWiki page
  5. Kitagawa, M et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res. 12 291-9 PubMed EcoliWiki page
  6. 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

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