rpsF:Gene: Difference between revisions

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Revision as of 03:23, 6 February 2009

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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

rpsF

Mnemonic
Synonyms

ECK4196, b4200, JW4158, sdgH[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

95.33 minutes, 95.33 minutes 

MG1655: 4423141..4423536
gbrowse_img.php?coord=4422141..4424536&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 4429798..4430193
gbrowse_img.php?coord=4428798..4431193&genome=ecoli_W3110&name=W3110&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

ΔrpsF (Keio:JW4158)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10995[3]

ΔrpsF750::kan

PMID:16738554[2]

CGSC:102798


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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

JW4158

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCCGTCATTACGAAATCGTTTT

Primer 2:CCtTCTTCAGAATCCCCAGCTTC

cadB2231::Tn10

Linked marker

CAG18488 = CGSC7479[3]

est. P1 cotransduction: 2% [5]
Synonyms:zjd-2231::Tn10

cycA30::Tn10

Linked marker

CAG12073 = CGSC7482[3]

est. P1 cotransduction: 90% [5]

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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:EG10905

EchoBASE (EcoliWiki Page)

EchoBASE:EB0898

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b4200

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C5291

EcoGene (EcoliWiki Page)

EcoGene:EG10905

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:RPSF

CGSC (EcoliWiki Page)

CGSC:225

ASAP (EcoliWikiPage)

ASAP:ABE-0013740


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Notes

Links

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Name URL Comments
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References

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  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. ↑ 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
  5. ↑ 5.0 5.1 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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