asd:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
Data loaded by TableEdit_Loader.
/Volumes/r3/t3/ul/working/touchTables/touch_all_tables.php
Line 93: Line 93:
|
|
{{GBrowseFastaLink|REL606|NC_012967|3505229|3506332|FASTA Dump}}  
{{GBrowseFastaLink|REL606|NC_012967|3505229|3506332|FASTA Dump}}  
|-
|
[[BW2952]]
|
|
NC_012759: 3460292..3461395<br />{{GBrowseFigureByCoord|3460292|3461395|BW2952|NC_012759}}
|
{{GBrowseLink|BW2952|012759|3460292|NC_3461395|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|012759|3460292|NC_3461395|FASTA Dump}}
|-  
|-  
|
|
Line 115: Line 126:
|
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|3667337|3672852|FASTA Dump}}  
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|3667337|3672852|FASTA Dump}}  
|-
|
[[BW2952]]
|
|
NC_012759: 3460292..3461395<br />{{GBrowseFigureByCoord|3460292|3461395|BW2952|NC_012759}}
|
{{GBrowseLink|BW2952|012759|3460292|NC_3461395|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|012759|3460292|NC_3461395|FASTA Dump}}


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 147: Line 147:
{|  id="R46a9f5ceeba57"  class=" tableEdit Gene_sequence_features_table"   
{|  id="R46a9f5ceeba57"  class=" tableEdit Gene_sequence_features_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.17413.R46a9f5ceeba57&page=17413&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table]</span> || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.17413.R46a9f5ceeba57&page=17413&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table]</span> || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.17413.R46a9f5ceeba57-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.17413.R46a9f5ceeba57-->

Revision as of 22:19, 10 May 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

asd

Mnemonic

Aspartate semialdehyde deHase

Synonyms

ECK3419, b3433, JW3396, dap, hom, dap+hom[1][2]

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

76.98 minutes 

MG1655: 3572901..3571798
gbrowse_img.php?coord=3571798..3572901&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 3506332..3505229
gbrowse_img.php?coord=3505229..3506332&genome=REL606&name=NC_012967&trackset=0&width=300&.png

BW2952

NC_012759: 3460292..3461395
gbrowse_img.php?coord=3460292..3461395&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

W3110

 

W3110: 4065537..4066640
gbrowse_img.php?coord=4065537..4066640&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 3670646..3669543
gbrowse_img.php?coord=3669543..3670646&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 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

asdC135S

C135S

99.7% loss of activity

seeded from UniProt:P0A9Q9

asdC135A

C135A

Complete loss of activity

seeded from UniProt:P0A9Q9

asd-1

CGSC:5115


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

JW3396

Plasmid clone

Shigen

PMID:16769691[3]

Status:Clone OK

Primer 1:GCCAAAAATGTTGGTTTTATCGG

Primer 2:CCgGCCAGTTGACGAAGCATCCG

glgP721::Tn10

Linked marker

CAG18638 = CGSC7451[4]

est. P1 cotransduction: 75% [5]
Synonyms:zhg-3086::Tn10, zhh-21::Tn10

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[4]

est. P1 cotransduction: 50% [5]
Synonyms:zhf-50::Tn10, zhf-5::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:EG10088

EchoBASE (EcoliWiki Page)

EchoBASE:EB0086

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3433

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C4220

EcoGene (EcoliWiki Page)

EcoGene:EG10088

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:ASD

CGSC (EcoliWiki Page)

CGSC:996

ASAP (EcoliWikiPage)

ASAP:ABE-0011211


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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  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=asd:Gene&oldid=1081421"