sstT:Gene: Difference between revisions

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!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes


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Revision as of 23:30, 10 May 2010

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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

sstT

Mnemonic

Sodium/Serine (Threonine) Transporter

Synonyms

ECK3080, b3089, JW3060, ygjU[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

69.79 minutes 

MG1655: 3237966..3239210
gbrowse_img.php?coord=3237966..3239210&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3172978..3174222
gbrowse_img.php?coord=3172978..3174222&genome=REL606&name=NC_012967&trackset=0&width=300&.png

BW2952

NC_012759: 3125114..3126358
gbrowse_img.php?coord=3125114..3126358&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

W3110

 

W3110: 3238600..3239844
gbrowse_img.php?coord=3238600..3239844&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3335711..3336955
gbrowse_img.php?coord=3335711..3336955&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 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

ΔsstT (Keio:JW3060)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10335[3]

ΔsstT779::kan

PMID:16738554[2]

CGSC:103032


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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

JW3060

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCACTACGCAACGTTCACCGGG

Primer 2:CCATTACGCAGGGCGCTATTTGC

aer-3075::Tn10

Linked marker

CAG12152 = CGSC7438[3]

est. P1 cotransduction: 43% [5]
Synonyms:zgh-3075::Tn10, zgj-3075::Tn10

sfsB203::Tn10

Linked marker

CAG12072 = CGSC7440[3]

est. P1 cotransduction: % [5]
Synonyms:zgj-203::Tn10, zha-203::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:EG12732

EchoBASE (EcoliWiki Page)

EchoBASE:EB2590

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3089

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3847

EcoGene (EcoliWiki Page)

EcoGene:EG12732

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YGJU

ASAP (EcoliWikiPage)

ASAP:ABE-0010159


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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. ↑ 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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