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alr: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

alr

Mnemonic

Alanine racemase

Synonyms

ECK4045, b4053, JW4013, alr5[1]

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

91.9 minutes 

MG1655: 4263805..4264884


REL606

NC_012967: 4244714..4245793


BW2952

NC_012759: 4202650..4203729


W3110

 

W3110: 4269372..4270451


DH10B

DH10B: 4363501..4364580


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

Δalr (Keio:JW4013)

deletion

deletion

No phenotype to Δalr except in a ΔdadX background. Double mutant requires D-alanine for growth.

PMID:16738554[2]

Shigen

alr-1(ts)

temperature sensitive

CGSC:5683

Δalr-746::kan

PMID:16738554[2]

CGSC:99980


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

JW4013

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCCAAGCGGCAACTGTTGTGAT

Primer 2:CCATCCACGTATTTCATCGCGAC

1E4

Kohara Phage

Genobase

PMID:3038334[4]

12D1

Kohara Phage

Genobase

PMID:3038334[4]

malF3089::Tn10

Linked marker

CAG12164 = CGSC7476[5]

est. P1 cotransduction: 42% [6]

zje-2241::Tn10

Linked marker

CAG18427 = CGSC7481[5]

est. P1 cotransduction: 17% [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:EG10001

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10001

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000001

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948564

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0001

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013272

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. 2.0 2.1 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. 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
  4. 4.0 4.1 Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed EcoliWiki page
  5. 5.0 5.1 CGSC: The Coli Genetics Stock Center
  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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