cycA:Gene

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

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Nomenclature

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Standard name

cycA

Mnemonic

Cycloserine

Synonyms

ECK4204, b4208, JW4166, dagA, ytfD[1], ytfD

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Notes

Location(s) and DNA Sequence

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Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

95.44 minutes 

MG1655: 4427887..4429299
<gbrowseImage> name=NC_000913:4427887..4429299 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4414863..4416275
<gbrowseImage> name=NC_012967:4414863..4416275 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4366622..4368034
<gbrowseImage> name=NC_012759:4366622..4368034 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4434544..4435956
<gbrowseImage> name=NC_007779:4434544..4435956 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4528249..4529661
<gbrowseImage> name=NC_010473:4528249..4529661 source=DH10B preset=GeneLocation </gbrowseImage>

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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
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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

ΔcycA (Keio:JW4166)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC11000[3]

cycA30::Tn10

Insertion at 4,428,159 bp in MG1655 (NC_000913)

adapted from Nichols et al.[4]

CAG12073 = CGSC7482[3]

Synonyms:

cycA1

CGSC:5291

cycA30::Tn10

CGSC:10466

cycA3185::Tn10kan

PMID:2540407[5]

CGSC:40605

ΔcycA757::kan

PMID:16738554[2]

CGSC:100462


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Notes

Genetic Interactions

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

JW4166

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCGTAGATCAGGTAAAAGTCGT

Primer 2:CCTTTCCGCAGTTCAGCAGCCCG

7E9

Kohara Phage

Genobase

PMID:3038334[7]

5B5

Kohara Phage

Genobase

PMID:3038334[7]

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[3]

est. P1 cotransduction: 1% [4]
Synonyms:zjd-2231::Tn10

zjf-920::Tn10

Linked marker

CAG12019 = CGSC7484[3]

est. P1 cotransduction: 55% [4]
Synonyms:zjh-901::Tn10, zjg-920::Tn10

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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:EG12504

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12504

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002311

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948725

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2397

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013764

Escherichia coli str. K-12 substr. MG1655

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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
  3. ↑ 3.0 3.1 3.2 3.3 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 4.2 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).
  5. ↑ Singer, M et al. (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol. Rev. 53 1-24 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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

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