fruA:Gene: Difference between revisions

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Update TableEdit tables.
Fixing REL gene coord display.
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!align=left |Standard name
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''fruA''  
''fruA''  
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!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
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!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK2160, b2167, JW2154, ptsF''<ref name='LIB:Riley_2006'/>
''ECK2160, b2167, JW2154, ptsF''<ref name='LIB:Riley_2006'/>
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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NC_012967: 2210907..2212598<br />{{GBrowseFigureByCoord|2210907|2212598|REL606|NC_012967}}
NC_012967: 2212598..2210907<br />{{GBrowseFigureByCoord|2210907|2212598|REL606|NC_012967}}
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{{GBrowseLink|REL606|NC_012967|2210907|2212598|GBrowse (REL606)}}
{{GBrowseLink|REL606|NC_012967|2210907|2212598|GBrowse (REL606)}}
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!|Feature type!!Location!!Description
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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!|Resource!!Resource Type!!Source!!Notes/Reference
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!|Name!!URL!!Comments
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Revision as of 20:23, 21 January 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 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

fruA

Mnemonic
Synonyms

ECK2160, b2167, JW2154, ptsF[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

48.66 minutes 

MG1655: 2259432..2257741
gbrowse_img.php?coord=2257741..2259432&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 2212598..2210907
gbrowse_img.php?coord=2210907..2212598&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 2264744..2263053
gbrowse_img.php?coord=2263053..2264744&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 2350421..2348730
gbrowse_img.php?coord=2348730..2350421&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

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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 Location Description
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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

ΔfruA (Keio:JW2154)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9747[3]

fruA

PMID:12519969[4]

ASAP

At position 236 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB20664

fruA

PMID:12519969[4]

ASAP

At position 236 in Plus orientation, does not contain plasmid pKD46.
ASAP strain name: FB20665

fruA5

CGSC:6118

fruA3

CGSC:6126

fruA10

CGSC:8969

fruA0

CGSC:10763

fruA9

CGSC:12040

fruA4

CGSC:16086

ΔfruA723::kan

PMID:16738554[2]

CGSC:101018


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Notes

A homologous recombination using various digestive enzymes allowed the mutant allele, fruA2 to be derived.The initial transformant colonies were selected in the presence of both thiostrepton and apramycin. FruA is specifically involved in fructose catabolism. A nonpolar fruA mutation impairs growth on fructose and also leads to a constitutive low expression of the fru operon. Uptake and phosphorylation of frustose to fructose-1-phosphate by fruA is necessary to relieve repression by fruR[5].

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

JW2154

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAAAACGCTGCTGATTATTGA

Primer 2:CCgGCTGCTTTCGCTACTGCGTC

zbd-3104::Tn10

Linked marker

CAG12021 = CGSC7344[3]

est. P1 cotransduction: % [7]
Synonyms:zbc-3105::Tn10, zbd-3105::Tn10

napA722::Tn10

Linked marker

CAG12098 = CGSC7400[3]

est. P1 cotransduction: 15% [7]
Synonyms:zeg-722, zei-722::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:EG10336

EchoBASE (EcoliWiki Page)

EchoBASE:EB0332

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2167

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C2702

EcoGene (EcoliWiki Page)

EcoGene:EG10336

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:FRUA

CGSC (EcoliWiki Page)

CGSC:350

ASAP (EcoliWikiPage)

ASAP:ABE-0007172


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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 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 PubMed
  5. ↑ Barrière, C et al. (2005) Fructose utilization in Lactococcus lactis as a model for low-GC gram-positive bacteria: its regulator, signal, and DNA-binding site. J. Bacteriol. 187 3752-61 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 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).

Categories

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