argK:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Edited by wikibot
Fixing Gbrowse links (bug #119)
Line 84: Line 84:
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11445 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG11445 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|3060009|3063004|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|3060009|3063004|GBrowse(MG1655)}}
   
   
|
|
{{GBrowseFastaLink|ecoli|NC_000913|3061009|3062004|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|3061009|3062004|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG11445 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG11445 EcoCyc Sequence Dump]  
|-  
|-  
Line 118: Line 118:


|
|
{{GBrowseLink|BW2952|012759|2948157|NC_2949152|GBrowse (BW2952)}}
{{GBrowseLink|BW2952|NC_012759|2948157|2949152|GBrowse (BW2952)}}
|
|
{{GBrowseFastaLink|BW2952|012759|2948157|NC_2949152|FASTA Dump}}  
{{GBrowseFastaLink|BW2952|NC_012759|2948157|2949152|FASTA Dump}}  
|-  
|-  
|
|
Line 134: Line 134:


|
|
{{GBrowseLink|ecoli_W3110|AC_000091|3060643|3063638|GBrowse(W3110)}}  
{{GBrowseLink|W3110|AC_000091|3060643|3063638|GBrowse(W3110)}}  
|
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|3061643|3062638|FASTA Dump}}  
{{GBrowseFastaLink|W3110|AC_000091|3061643|3062638|FASTA Dump}}  
|-  
|-  
|
|
Line 150: Line 150:


|
|
{{GBrowseLink|ecoli_DH10B|NC_010473|3152889|3157864|GBrowse(DH10B)}}
{{GBrowseLink|DH10B|NC_010473|3152889|3157864|GBrowse(DH10B)}}
|
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|3152889|3157864|FASTA Dump}}  
{{GBrowseFastaLink|DH10B|NC_010473|3152889|3157864|FASTA Dump}}  


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  

Revision as of 19:41, 17 August 2011

{{#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

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

argK

Mnemonic

Arginine

Synonyms

ECK2914, b2918, JW2885, ygfD[1]

edit table


Notes

Location(s) and DNA Sequence

[back to top]


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

65.97 minutes 

MG1655: 3061009..3062004
<gbrowseImage> name=NC_000913:3061009..3062004 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2948738..2949733
<gbrowseImage> name=NC_012967:2948738..2949733 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2948157..2949152
<gbrowseImage> name=NC_012759:2948157..2949152 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3061643..3062638
<gbrowseImage> name=AC_000091:3061643..3062638 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3154879..3155874
<gbrowseImage> name=NC_010473:3154879..3155874 source=DH10B preset=GeneLocation </gbrowseImage>

edit table


Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes
edit table


Notes

Alleles and Phenotypes

[back to top]


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

argKS68R

S68R

Auxotrophies

(in strain: RC101)

Strain variation; seeded from UniProt:P27254

argKT154A

T154A

Auxotrophies

(in strain: RC101)

Strain variation; seeded from UniProt:P27254

ΔargK (Keio:JW2885)

deletion

deletion

Auxotrophies

PMID:16738554[2]

Shigen


edit table


Notes

Genetic Interactions

[back to top]



Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table


Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW2885

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCATTAATGAAGCCACGCTGGC

Primer 2:CCATCAAAATATTGCGTCTGGAT

recD1901::Tn10

Linked marker

CAG12135 = CGSC7429[4]

est. P1 cotransduction: % [5]

speA210::Tn10

Linked marker

CAG12168 = CGSC7431[4]

est. P1 cotransduction: 40% [5]
Synonyms:zgd-210::Tn10, zgf-210::Tn10

edit table


Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11445

EchoBASE (EcoliWiki Page)

EchoBASE:EB1415

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2918

EcoGene (EcoliWiki Page)

EcoGene:EG11445

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:YGFD

ASAP (EcoliWikiPage)

ASAP:ABE-0009579


edit table


Notes

Links

[back to top]



<protect>

References

[back to top]


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. ↑ 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. ↑ 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).

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=argK:Gene&oldid=1310027"