cusA:Gene: Difference between revisions

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!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
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''ECK0567, b0575, JW0564, ybdE, agrA''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
''ECK0567, b0575, JW0564, ybdE, agrA''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>, silA''


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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="D46a9b3cedd98a"  class=" tableEdit Gene_location_table"   
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!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
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W3110: 597937..601080<br /><gbrowseImage>
W3110: 597937..601080<br /><gbrowseImage>
name=AC_000091:597937..601080
name=NC_007779:597937..601080
source=W3110
source=W3110
preset=GeneLocation
preset=GeneLocation
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{{GBrowseLink|W3110|AC_000091|596937|602080|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|596937|602080|GBrowse(W3110)}}  
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{{GBrowseFastaLink|W3110|AC_000091|597937|601080|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|597937|601080|FASTA Dump}}  
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{|   id="F46a9b3cf85b8f"  class=" tableEdit Gene_sequence_features_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46a9b3cf85b8f"  class=" tableEdit Gene_sequence_features_table"   
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!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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{| {{Prettytable}} id="V46a9b3cfc5a2f"  class=" tableEdit Gene_allele_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="V46a9b3cfc5a2f"  class=" tableEdit Gene_allele_table dataTable"   
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!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
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{|   id="F4e04b9354a27b"  class=" tableEdit Genetic_interaction_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F4e04b9354a27b"  class=" tableEdit Genetic_interaction_table dataTable"   
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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{|   id="Q46a9b3d06dadd"  class=" tableEdit Gene_resource_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46a9b3d06dadd"  class=" tableEdit Gene_resource_table"   
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!|Resource!!Resource Type!!Source!!Notes/Reference
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Primer 2:CCTTTCCGTACCCGATGTCGGTG  
Primer 2:CCTTTCCGTACCCGATGTCGGTG  
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[[:Category:Kohara_Phage:2F5|2F5]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=162 Genobase]
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PMID:3038334
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[[:Category:Kohara_Phage:21A9S|21A9S]]
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Kohara Phage
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[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=163 Genobase]
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PMID:3038334
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{|   id="I46a9b3d102046"  class=" tableEdit Gene_accessions_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="I46a9b3d102046"  class=" tableEdit Gene_accessions_table"   
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!|Database!!Accession!!Notes
!|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=EG12367 EcoCyc:EG12367]
EcoCyc:EG12367
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB2270 EchoBASE:EB2270]
EcoGene:EG12367
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
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[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
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[http://chase.ou.edu/macro/searchlink.php?bnum=b0575 EcoliGenExpDB:b0575]
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[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
[[RegulonDB]]
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[http://BioCyc.org/ECOL199310/new-image?object=C0661 ECOL199310CYC:C0661]
RegulonDB:ECK120002235
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
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[http://ecogene.org/geneinfo.php?eg_id=EG12367 EcoGene:EG12367]
[http://www.ncbi.nlm.nih.gov/gene?term=945191 GeneID:945191]
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Escherichia coli str. K-12 substr. MG1655
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[EchoBASE]]
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[http://BioCyc.org/ECOO157/new-image?object=YBDE ECOO157CYC:YBDE]
EchoBASE:EB2270
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
[[ASAP]]
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[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0001971&formSubmitReturn=1 ASAP:ABE-0001971]
ASAP:ABE-0001971
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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!|Name!!URL!!Comments
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Latest revision as of 20:32, 19 September 2013

{{#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

cusA

Mnemonic

Cu sensor

Synonyms

ECK0567, b0575, JW0564, ybdE, agrA[1][2], silA

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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

12.89 minutes 

MG1655: 597937..601080
<gbrowseImage> name=NC_000913:597937..601080 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 579617..582760
<gbrowseImage> name=NC_012967:579617..582760 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 500697..503840
<gbrowseImage> name=NC_012759:500697..503840 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 597937..601080
<gbrowseImage> name=NC_007779:597937..601080 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 537269..540412
<gbrowseImage> name=NC_010473:537269..540412 source=DH10B preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 650529..653672
<gbrowseImage> name=NC_010473:650529..653672 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

cusAM755I

M755I

Slight decrease in copper resistance

seeded from UniProt:P38054

cusAM792I

M792I

No change in copper resistance

seeded from UniProt:P38054

cusAM812I

M812I

Slight decrease in copper resistance

seeded from UniProt:P38054

cusAM833I

M833I

Slight decrease in copper resistance

seeded from UniProt:P38054

cusAM640I

M640I

No change in copper resistance

seeded from UniProt:P38054

cusAM672I

M672I

Loss of copper resistance

seeded from UniProt:P38054

cusAM738I

M738I

No change in copper resistance

seeded from UniProt:P38054

cusAE412Q

E412Q

Loss of copper resistance

seeded from UniProt:P38054

cusAM573I

M573I

Loss of copper resistance

seeded from UniProt:P38054

cusAM623I

M623I

Loss of copper resistance

seeded from UniProt:P38054

cusAA399D

A399D

Strong decrease in copper resistance

seeded from UniProt:P38054

cusAD405N

D405N

Loss of copper resistance

seeded from UniProt:P38054

cusAE412D

E412D

Slight decrease in copper resistance

seeded from UniProt:P38054

ΔcusA (Keio:JW0564)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC8689[4]

ΔcusA784::kan

PMID:16738554[3]

CGSC:100438


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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

JW0564

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCATTGAATGGATTATTCGTCG

Primer 2:CCTTTCCGTACCCGATGTCGGTG

2F5

Kohara Phage

Genobase

PMID:3038334[6]

21A9S

Kohara Phage

Genobase

PMID:3038334[6]

purK79::Tn10

Linked marker

CAG12171 = CGSC7342[4]

est. P1 cotransduction: 13% [7]
Synonyms:purE79::Tn10

dsbG601::Tn10

Linked marker

CAG12149 = CGSC7346[4]

est. P1 cotransduction: 21% [7]
Synonyms:zbd-601::Tn10, zbe-601::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

EcoCyc:EG12367

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12367

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002235

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945191

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2270

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001971

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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 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
  4. ↑ 4.0 4.1 4.2 CGSC: The Coli Genetics Stock Center
  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 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 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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