aroB:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Update TableEdit tables.
Fixing REL gene coord display.
Line 34: Line 34:


|-
|-
!align=left |Standard name
!align=left {{table_heading_style}} |Standard name
||
||
''aroB''  
''aroB''  
|-
|-
!align=left |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
||
||


|-
|-
!align=left |Synonyms
!align=left {{table_heading_style}} |Synonyms
||
||
''ECK3376, b3389, JW3352''<ref name='LIB:Riley_2006'/>
''ECK3376, b3389, JW3352''<ref name='LIB:Riley_2006'/>
Line 66: Line 66:
****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_help}}
{|  id="N46a9f4b286141"  class=" tableEdit Gene_location_table"   
{|  id="N46a9f4b286141"  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 88: Line 88:


|
|
NC_012967: 3446080..3447168<br />{{GBrowseFigureByCoord|3446080|3447168|REL606|NC_012967}}
NC_012967: 3447168..3446080<br />{{GBrowseFigureByCoord|3446080|3447168|REL606|NC_012967}}
|
|
{{GBrowseLink|REL606|NC_012967|3446080|3447168|GBrowse (REL606)}}
{{GBrowseLink|REL606|NC_012967|3446080|3447168|GBrowse (REL606)}}
Line 135: Line 135:
****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_help}}
{|  id="J46a9f4b347478"  class=" tableEdit Gene_sequence_features_table"   
{|  id="J46a9f4b347478"  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="O46a9f4b3907be"  class=" tableEdit Gene_allele_table"   
{| {{Prettytable}}  id="O46a9f4b3907be"  class=" tableEdit Gene_allele_table"   
|-
|- {{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 298: Line 298:
****************************************************************************************** -->{{Gene_resources_help}}
****************************************************************************************** -->{{Gene_resources_help}}
{|  id="I46a9f4b451555"  class=" tableEdit Gene_resource_table"   
{|  id="I46a9f4b451555"  class=" tableEdit Gene_resource_table"   
|-
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
|-  
|-  
Line 355: Line 355:
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|  id="H46a9f4b4eddbe"  class=" tableEdit Gene_accessions_table"   
{|  id="H46a9f4b4eddbe"  class=" tableEdit Gene_accessions_table"   
|-
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
Line 433: Line 433:
****************************************************************************************** -->
****************************************************************************************** -->
{|  id="X46a70fbcb973b"  class=" tableEdit Links_table"   
{|  id="X46a70fbcb973b"  class=" tableEdit Links_table"   
|-
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


Revision as of 20:09, 21 January 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

aroB

Mnemonic
Synonyms

ECK3376, b3389, JW3352[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

75.77 minutes, 75.77 minutes 

MG1655: 3516508..3515420
gbrowse_img.php?coord=3515420..3516508&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3447168..3446080
gbrowse_img.php?coord=3446080..3447168&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 4121930..4123018
gbrowse_img.php?coord=4121930..4123018&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3614253..3613165
gbrowse_img.php?coord=3613165..3614253&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

ΔaroB (Keio:JW3352)

deletion

deletion

PMID:16738554[2]

Shigen
CGSC10501[3]

aroB::Tn5KAN

PMID:12519969[4]

ASAP

At position 150 in Plus orientation, contains plasmid pKD46.
ASAP strain name: FB21151

aroB::Tn5KAN

PMID:12519969[4]

ASAP

At position 150 in Plus orientation, does not contain plasmid pKD46.
ASAP strain name: FB21152

aroB351

CGSC:8221

aroB15

CGSC:10900

aroB11

CGSC:11004

ΔaroB724::kan

PMID:16738554[2]

CGSC:100060


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

JW3352

Plasmid clone

Shigen

PMID:16769691[5]

Status:Clone OK

Primer 1:GCCGAGAGGATTGTCGTTACTCT

Primer 2:CCgGCTGATTGACAATCGGCAAT

zhf-3084::Tn10

Linked marker

CAG18456 = CGSC7576[3]

est. P1 cotransduction: 65% [6]
Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).

glgP721::Tn10

Linked marker

CAG18638 = CGSC7451[3]

est. P1 cotransduction: 11% [6]
Synonyms:zhg-3086::Tn10, zhh-21::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:EG10074

EchoBASE (EcoliWiki Page)

EchoBASE:EB0072

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3389

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4159

EcoGene (EcoliWiki Page)

EcoGene:EG10074

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:AROB

CGSC (EcoliWiki Page)

CGSC:1007

ASAP (EcoliWikiPage)

ASAP:ABE-0011067


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. ↑ 4.0 4.1 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=aroB:Gene&oldid=1026901"