aroF:Gene: Difference between revisions

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Revision as of 20:19, 26 July 2010

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Location(s) and DNA Sequence Sequence Features Alleles and Phenotypes 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

aroF

Mnemonic

Aromatic

Synonyms

ECK2598, b2601, JW2582[1]

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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

59.01 minutes 

MG1655: 2739172..2738102
<gbrowseImage> name=NC_000913:2738102..2739172 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2662557..2661487
<gbrowseImage> name=NC_012967:2661487..2662557 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2623914..2624984
<gbrowseImage> name=NC_012759:2623914..2624984 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2739806..2738736
<gbrowseImage> name=AC_000091:2738736..2739806 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2830937..2829867
<gbrowseImage> name=NC_010473:2829867..2830937 source=ecoli_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

Coding Start (SO:0000323)

MG1655

2738102

Edman degradation

PMID:6104668[2]
PMID:6146618[3]


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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

ΔaroF (Keio:JW2582)

deletion

deletion

PMID:16738554[4]

Shigen
CGSC10050[5]

aroF::Tn5KAN

PMID:12519969[6]

ASAP

At position 345 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB20866

aroF363

CGSC:11301

ΔaroF764::kan

PMID:16738554[4]

CGSC:100066


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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

JW2582

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCCAAAAAGACGCGCTGAATAA

Primer 2:CCAGCCACGCGAGCCGTCAGCTG

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[5]

est. P1 cotransduction: 98% [8]

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[5]

est. P1 cotransduction: % [8]
Synonyms:zfh-3131::Tn10, zfi-3131::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 (EcoliWiki Page)

EcoCyc:EG10078

EchoBASE (EcoliWiki Page)

EchoBASE:EB0076

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2601

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3122

EcoGene (EcoliWiki Page)

EcoGene:EG10078

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:AROF

CGSC (EcoliWiki Page)

CGSC:1003

ASAP (EcoliWikiPage)

ASAP:ABE-0008549


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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. ↑ Herrmann, KM et al. (1980) Sequence homology between the tyrosine-sensitive 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase from Escherichia coli and hemerythrin from Sipunculida. J. Biol. Chem. 255 7079-81 PubMed
  3. ↑ Shultz, J et al. (1984) The nucleotide sequence of the aroF gene of Escherichia coli and the amino acid sequence of the encoded protein, the tyrosine-sensitive 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase. J. Biol. Chem. 259 9655-61 PubMed
  4. ↑ 4.0 4.1 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
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
  7. ↑ 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
  8. ↑ 8.0 8.1 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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