secA:Gene: Difference between revisions

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Refreshing information from GenBank record NC_000913
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10936 ECOCYC:EG10936]
EcoCyc:EG10936
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG10936 EcoGene:EG10936]
EcoGene:EG10936
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Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
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[[RegulonDB]]
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RegulonDB:ECK120000925
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB0929
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[ASAP]]
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ASAP:ABE-0000343
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Revision as of 07:18, 27 May 2013

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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

secA

Mnemonic

Secretory

Synonyms

ECK0099, b0098, JW0096, azi, pea, prlD[1], prlD

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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

2.33 minutes 

MG1655: 108279..110984
<gbrowseImage> name=NC_000913:108279..110984 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 111083..113788
<gbrowseImage> name=NC_012967:111083..113788 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 108278..110983
<gbrowseImage> name=NC_012759:108278..110983 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 108279..110984
<gbrowseImage> name=AC_000091:108279..110984 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 82383..85088
<gbrowseImage> name=NC_010473:82383..85088 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

Coding Start (SO:0000323)

MG1655

108279

Edman degradation

PMID:2841285[2]


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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

secA207(aziR)

azide resistant

CGSC:6430

secA206(aziR)

azide resistant

CGSC:4928

secA214(aziR)

azide resistant

CGSC:6432

secA215

CGSC:6917

secA204(aziR)

azide resistant

CGSC:8372

secA209(aziR)

azide resistant

CGSC:8422

secA216

CGSC:9825

secA201(aziR)

azide resistant

CGSC:13121

secA202(aziR)

azide resistant

CGSC:13339

secA203(aziR)

azide resistant

CGSC:13341

secA205(aziR)

azide resistant

CGSC:13953

secA51(ts)

temperature sensitive

PMID:7665473[3]

CGSC:38546


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Notes

SecA mutants were first identified by Oliver and Beckwith[4] by looking for suppressors of the Lac- phenotype of a maE-lacZ fusion. The original secA alleles were ts lethals.


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

JW0096

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCCTAATCAAATTGTTAACTAA

Primer 2:CCTTGCAGGCGGCCATGGCACTG

15B8

Kohara Phage

Genobase

PMID:3038334[6]

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[7]

est. P1 cotransduction: 39% [8]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

zad-220::Tn10

Linked marker

CAG12025 = CGSC7326[7]

est. P1 cotransduction: 18% [8]

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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

EcoCyc:EG10936

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10936

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944821

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000925

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0929

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000343

Escherichia coli str. K-12 substr. MG1655

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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. ↑ Schmidt, MG et al. (1988) Nucleotide sequence of the secA gene and secA(Ts) mutations preventing protein export in Escherichia coli. J. Bacteriol. 170 3404-14 PubMed
  3. ↑ Danese, PN et al. (1995) Multicopy suppression of cold-sensitive sec mutations in Escherichia coli. J. Bacteriol. 177 4969-73 PubMed
  4. ↑ Oliver, DB & Beckwith, J (1981) E. coli mutant pleiotropically defective in the export of secreted proteins. Cell 25 765-72 PubMed
  5. ↑ 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
  6. ↑ Kohara, Y et al. (1987) The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell 50 495-508 PubMed
  7. ↑ 7.0 7.1 CGSC: The Coli Genetics Stock Center
  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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