ispF:Gene: Difference between revisions

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{{GBrowseLink|ecoli_W3110|AC_000091|2868957|2871436|GBrowse(W3110)}}  
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{{GBrowseLink|ecoli_DH10B|NC_010473|2960907|2963302|GBrowse(DH10B)}}
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Revision as of 20:06, 17 August 2011

{{#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 Interactions 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

ispF

Mnemonic

Isoprenoid

Synonyms

ECK2741, b2746, JW2716, ygbB[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

61.84 minutes 

MG1655: 2869802..2869323
<gbrowseImage> name=NC_000913:2869323..2869802 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2766641..2766162
<gbrowseImage> name=NC_012967:2766162..2766641 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2755135..2755614
<gbrowseImage> name=NC_012759:2755135..2755614 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2870436..2869957
<gbrowseImage> name=AC_000091:2869957..2870436 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2962344..2961865
<gbrowseImage> name=NC_010473:2961865..2962344 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

ispFD8S

D8S

Loss of activity

seeded from UniProt:P62617

ispFH42S

H42S

Loss of activity

seeded from UniProt:P62617

ispFD56S

D56S

35% decrease of activity

seeded from UniProt:P62617

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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

JW2716

Plasmid clone

Shigen

PMID:16769691[2]

Status:Clone OK

Primer 1:GCCCGAATTGGACACGGTTTTGA

Primer 2:CCTTTTGTTGCCTTAATGAGTAG

srlD3131::Tn10

Linked marker

CAG18642 = CGSC7423[3]

est. P1 cotransduction: 15% [4]
Synonyms:zfh-3131::Tn10, zfi-3131::Tn10

cysI95::Tn10

Linked marker

CAG12173 = CGSC7425[3]

est. P1 cotransduction: 55% [4]
Synonyms:cysC95::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:EG11816

EchoBASE (EcoliWiki Page)

EchoBASE:EB1763

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2746

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3313

EcoGene (EcoliWiki Page)

EcoGene:EG11816

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YGBB

ASAP (EcoliWikiPage)

ASAP:ABE-0009013


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Notes

Links

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<protect>

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. ↑ 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
  3. ↑ 3.0 3.1 CGSC: The Coli Genetics Stock Center
  4. ↑ 4.0 4.1 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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