zraR:Gene: Difference between revisions

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Refreshing information from GenBank record NC_000913
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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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=EG10482 ECOCYC:EG10482]
EcoCyc:EG10482
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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]])
[[EcoGene]]
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[http://ecogene.org/geneinfo.php?eg_id=EG10482 EcoGene:EG10482]
EcoGene:EG10482
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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:ECK120000475
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EchoBASE]]
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EchoBASE:EB0477
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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-0013093
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Revision as of 07:34, 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

zraR

Mnemonic

Zn resistance-associated

Synonyms

ECK3996, b4004, JW3968, hydG[1], hydG

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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

90.55 minutes, 90.55 minutes 

MG1655: 4201343..4202668
<gbrowseImage> name=NC_000913:4201343..4202668 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4182905..4184230
<gbrowseImage> name=NC_012967:4182905..4184230 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4091023..4092348
<gbrowseImage> name=NC_012759:4091023..4092348 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3433361..3432036
<gbrowseImage> name=AC_000091:3432036..3433361 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4301039..4302364
<gbrowseImage> name=NC_010473:4301039..4302364 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

ΔzraR (Keio:JW3968)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10854[3]

ΔhydG::kan

deletion

Biolog:respiration

unable to respire Acetate

PMID:16095938[4]

ΔhydG::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938[4]

ΔhydG::kan

deletion

Biolog:respiration

unable to respire a-Ketoglutarate

PMID:16095938[4]

ΔhydG::kan

deletion

Biolog:respiration

unable to respire L-Aspartate

PMID:16095938[4]

ΔzraR775::kan

PMID:16738554[2]

CGSC:106114


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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

JW3968

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCACGCACGATAATATCGATAT

Primer 2:CCACGCGACAGTTTTGCCAATAG

thiC39::Tn10

Linked marker

CAG18500 = CGSC7472[3]

est. P1 cotransduction: 79% [6]
Synonyms:thi-39::Tn10

malF3089::Tn10

Linked marker

CAG12164 = CGSC7476[3]

est. P1 cotransduction: 19% [6]

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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:EG10482

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10482

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948505

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000475

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0477

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013093

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. ↑ 4.0 4.1 4.2 4.3 Ito, M et al. (2005) Functional analysis of 1440 Escherichia coli genes using the combination of knock-out library and phenotype microarrays. Metab. Eng. 7 318-27 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. ↑ 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).

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