pgpB:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Synonyms
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''ECK1273, b1278, JW1270''<ref name='LIB:Riley_2006'/>
''ECK1273, b1278, JW1270''<ref name='LIB:Riley_2006'/>, JW1270''


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10705 ECOCYC:EG10705]
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Escherichia coli str. K-12 substr. MG1655
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG10705 EcoGene:EG10705]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/gene?term=945863 GeneID:945863]
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Escherichia coli str. K-12 substr. MG1655


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Revision as of 04:04, 24 September 2011

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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

pgpB

Mnemonic

Phosphatidylglycerophosphate phosphatase

Synonyms

ECK1273, b1278, JW1270[1], JW1270

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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

28.82 minutes 

MG1655: 1337354..1338118
<gbrowseImage> name=NC_000913:1337354..1338118 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 1337702..1338466
<gbrowseImage> name=NC_012967:1337702..1338466 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 1228203..1228967
<gbrowseImage> name=NC_012759:1228203..1228967 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 1341044..1341808
<gbrowseImage> name=AC_000091:1341044..1341808 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 1426750..1427514
<gbrowseImage> name=NC_010473:1426750..1427514 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

ΔpgpB (Keio:JW1270)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC9142[3]

ΔpgpB786::kan

PMID:16738554[2]

CGSC:102316


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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

JW1270

Plasmid clone

Shigen

PMID:16769691[4]

Status:Clone OK

Primer 1:GCCCGTTCGATTGCCAGACGTAC

Primer 2:CCACTTTCTTGTTCTCGTTGCGC

18B6

Kohara Phage

Genobase

PMID:3038334[5]

trpC83::Tn10

Linked marker

CAG18455 = CGSC7371[3]

est. P1 cotransduction: 49% [6]
Synonyms:trpB83::Tn10

zcj-233::Tn10

Linked marker

CAG12028 = CGSC7373[3]

est. P1 cotransduction: 29% [6]
Synonyms:zci-233::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:EG10705

Escherichia coli str. K-12 substr. MG1655

EcoGene (EcoliWiki Page)

EcoGene:EG10705

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945863

Escherichia coli str. K-12 substr. MG1655

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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. ↑ 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
  6. ↑ 6.0 6.1 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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