parE:Gene: Difference between revisions

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getting rid of the extra cat tag.
Adding section & Genetic interactions table to Gene pages.
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|{{Sub}}[[#Sequence Features|Sequence Features]]
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|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
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|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
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===Notes===
===Notes===


==Genetic Interactions==
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===Notes===


==Genetic Resources==
==Genetic Resources==

Revision as of 16:52, 24 June 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

parE

Mnemonic

Partition

Synonyms

ECK3021, b3030, JW2998, nfxD[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

68.36 minutes 

MG1655: 3173418..3171526
<gbrowseImage> name=NC_000913:3171526..3173418 source=ecoli preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3109568..3107676
<gbrowseImage> name=NC_012967:3107676..3109568 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3058674..3060566
<gbrowseImage> name=NC_012759:3058674..3060566 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3174052..3172160
<gbrowseImage> name=AC_000091:3172160..3174052 source=ecoli_W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3271163..3269271
<gbrowseImage> name=NC_010473:3269271..3271163 source=ecoli_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

parEL445H

L445H

(in strain: DH161; quinolone- resistant)

Strain variation; seeded from UniProt:P20083

parEC316Y

C316Y

Sensitivity to

temperature sensitivity

PMID:12509418[2]

identical to wt TopoIV in the superhelical DNA relaxation assay at permissive temperature

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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

JW2998

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCACGCAAACTTATAACGCTGA

Primer 2:CCAACCTCAATCTCCGCCATGTC

metC162::Tn10

Linked marker

CAG18475 = CGSC7435[4]

est. P1 cotransduction: 46% [5]

tolC210::Tn10

Linked marker

CAG12184 = CGSC7437[4]

est. P1 cotransduction: 80% [5]

plex5BA-parEC

Plasmid Clone

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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:EG10687

EchoBASE (EcoliWiki Page)

EchoBASE:EB0681

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3030

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C3776

EcoGene (EcoliWiki Page)

EcoGene:EG10687

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:PARE

CGSC (EcoliWiki Page)

CGSC:33451

ASAP (EcoliWikiPage)

ASAP:ABE-0009950


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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. ↑ Nurse, P et al. (2003) Topoisomerase III can serve as the cellular decatenase in Escherichia coli. J. Biol. Chem. 278 8653-60 PubMed
  3. ↑ 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
  4. ↑ 4.0 4.1 CGSC: The Coli Genetics Stock Center
  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).
  6. ↑ Mossessova, E et al. (2000) Mutational analysis of Escherichia coli topoisomerase IV. I. Selection of dominant-negative parE alleles. J. Biol. Chem. 275 4099-103 PubMed

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