hyaC:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Update TableEdit tables.
Automated update of mnemonics from EcoGene.
Line 34: Line 34:


|-
|-
!align=left |Standard name
!align=left {{table_heading_style}} |Standard name
||
||
''hyaC''  
''hyaC''
|-
|-
!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
||
||
 
Hydrogenase 1
|-
|-
!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
||
||
''ECK0965, b0974, JW0956, cybH''<ref name='LIB:Riley_2006'/>
''ECK0965, b0974, JW0956, cybH''<ref name='LIB:Riley_2006'/>
Line 66: Line 66:
****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_help}}
{|  id="A46a9bcde7479f"  class=" tableEdit Gene_location_table"   
{|  id="A46a9bcde7479f"  class=" tableEdit Gene_location_table"   
|-
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-  
|-  
Line 135: Line 135:
****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_help}}
{|  id="E46a9bcdf1f065"  class=" tableEdit Gene_sequence_features_table"   
{|  id="E46a9bcdf1f065"  class=" tableEdit Gene_sequence_features_table"   
|-
|- {{table_heading_style}}
!|Feature type!!Location!!Description
!|Feature type!!Location!!Description


Line 156: Line 156:
*  
*  
****************************************************************************************** -->{{Gene_alleles_help}}
****************************************************************************************** -->{{Gene_alleles_help}}
{|   id="H46a9bcdf5fb2d"  class=" tableEdit Gene_allele_table"   
{| {{Prettytable}}  id="H46a9bcdf5fb2d"  class=" tableEdit Gene_allele_table dataTable"   
|-
|- {{table_heading_style}}
!|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
|-  
|-  
Line 230: Line 230:
****************************************************************************************** -->{{Gene_resources_help}}
****************************************************************************************** -->{{Gene_resources_help}}
{|  id="M46a9bce00a276"  class=" tableEdit Gene_resource_table"   
{|  id="M46a9bce00a276"  class=" tableEdit Gene_resource_table"   
|-
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
|-  
|-  
Line 285: Line 285:
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|  id="G46a9bce094c8b"  class=" tableEdit Gene_accessions_table"   
{|  id="G46a9bce094c8b"  class=" tableEdit Gene_accessions_table"   
|-
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
Line 363: Line 363:
****************************************************************************************** -->
****************************************************************************************** -->
{|  id="H46a6da41e85c5"  class=" tableEdit Links_table"   
{|  id="H46a6da41e85c5"  class=" tableEdit Links_table"   
|-
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


Revision as of 21:18, 25 February 2010

{{#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 Alleles and Phenotypes 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

hyaC

Mnemonic

Hydrogenase 1

Synonyms

ECK0965, b0974, JW0956, cybH[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

22.29 minutes 

MG1655: 1034289..1034996
gbrowse_img.php?coord=1034289..1034996&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 1052157..1052864
gbrowse_img.php?coord=1052157..1052864&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 1035488..1036195
gbrowse_img.php?coord=1035488..1036195&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1088217..1088924
gbrowse_img.php?coord=1088217..1088924&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

edit table


Notes

Sequence Features

[back to top]


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

Feature type Location Description
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

ΔhyaC (Keio:JW0956)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC8952[3]

hyaC

PMID:12519969[4]

ASAP

At position 460 in Minus orientation, does not contain plasmid pKD46 Insertion site is approximate.
ASAP strain name: FB20076

ΔhyaC788::kan

PMID:16738554[2]

CGSC:101448


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

JW0956

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCCAACAGAAAAGCGACAACGT

Primer 2:CCTGAACGCTCCTTGTTACTTAT

zcb-3059::Tn10

Linked marker

CAG12094 = CGSC7358[3]

est. P1 cotransduction: 28% [6]

zcc-282::Tn10

Linked marker

CAG18466 = CGSC7359[3]

est. P1 cotransduction: 34% [6]

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:EG10470

EchoBASE (EcoliWiki Page)

EchoBASE:EB0465

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0974

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C1115

EcoGene (EcoliWiki Page)

EcoGene:EG10470

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:HYAC

CGSC (EcoliWiki Page)

CGSC:31788

ASAP (EcoliWikiPage)

ASAP:ABE-0003290


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. ↑ 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. ↑ Glasner, JD et al. (2003) ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31 147-51 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).

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=hyaC:Gene&oldid=1056024"