accD:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
Whitley (talk | contribs)
407 edits
Table edited by Whitley via TableEdit
touch
 
(2 intermediate revisions by 2 users not shown)
Line 67: Line 67:
*  
*  
****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_help}}
{|   id="I46a9db32b22a3"  class=" tableEdit Gene_location_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="I46a9db32b22a3"  class=" tableEdit Gene_location_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
Line 128: Line 128:
|
|
W3110: 2439372..2438458<br /><gbrowseImage>
W3110: 2439372..2438458<br /><gbrowseImage>
name=AC_000091:2438458..2439372
name=NC_007779:2438458..2439372
source=W3110
source=W3110
preset=GeneLocation
preset=GeneLocation
Line 134: Line 134:


|
|
{{GBrowseLink|W3110|AC_000091|2437458|2440372|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|2437458|2440372|GBrowse(W3110)}}  
|
|
{{GBrowseFastaLink|W3110|AC_000091|2438458|2439372|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|2438458|2439372|FASTA Dump}}  
|-  
|-  
|
|
Line 172: Line 172:
*  
*  
****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_help}}
{|   id="M46a9db33691db"  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="M46a9db33691db"  class=" tableEdit Gene_sequence_features_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
Line 194: Line 194:
*  
*  
****************************************************************************************** -->{{Gene_alleles_help}}
****************************************************************************************** -->{{Gene_alleles_help}}
{| {{Prettytable}} id="J46a9db33ae3cc"  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="J46a9db33ae3cc"  class=" tableEdit Gene_allele_table dataTable"   
|- {{table_heading_style}}
|- {{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 214: Line 214:
|
|
at 37C normal growth can be restored  
at 37C normal growth can be restored  
|-
|
''accD<sup>  ++</sup>''
|
|
|
Overexpression
|
Increase Acetyle COA Carboxylase activity upon over expression.
|
PMID:10893421
|
|
See Table 1.


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 234: Line 251:
*  
*  
****************************************************************************************** -->{{Genetic_interaction_help}}
****************************************************************************************** -->{{Genetic_interaction_help}}
{|   id="M4e04b6cac1f7c"  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="M4e04b6cac1f7c"  class=" tableEdit Genetic_interaction_table dataTable"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
Line 255: Line 272:
*  
*  
****************************************************************************************** -->{{Gene_resources_help}}
****************************************************************************************** -->{{Gene_resources_help}}
{|   id="G46a9db34655a6"  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="G46a9db34655a6"  class=" tableEdit Gene_resource_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
Line 330: Line 347:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|   id="E46a9db3505ea4"  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="E46a9db3505ea4"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
EcoCyc:EG10217
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
|
[[EcoGene]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10217 ECOCYC:EG10217]
EcoGene:EG10217
|
|
Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10217 EcoGene:EG10217]
RegulonDB:ECK120000211
|
|
Escherichia coli str. K-12 substr. MG1655  
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
Line 354: Line 378:
|
|
Escherichia coli str. K-12 substr. MG1655  
Escherichia coli str. K-12 substr. MG1655  
|-
|
[[EchoBASE]]
|
EchoBASE:EB0213
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
ASAP:ABE-0007648
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 373: Line 411:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|   id="J46a6f8520db19"  class=" tableEdit Links_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J46a6f8520db19"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments

Latest revision as of 20:41, 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

[back to top]


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

Standard name

accD

Mnemonic

Acetyl-CoA carboxylase

Synonyms

ECK2310, b2316, JW2313, dedB[1], dedB, usg

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

BW2952

NC_012759: 2316839..2317753
<gbrowseImage> name=NC_012759:2316839..2317753 source=BW2952 preset=GeneLocation </gbrowseImage>

MG1655

52.4 minutes, 52.4 minutes 

MG1655: 2431948..2431034
<gbrowseImage> name=NC_000913:2431034..2431948 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2377518..2376604
<gbrowseImage> name=NC_012967:2376604..2377518 source=REL606 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2439372..2438458
<gbrowseImage> name=NC_007779:2438458..2439372 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2523713..2522799
<gbrowseImage> name=NC_010473:2522799..2523713 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

accD6(ts)

Growth Phenotype

temperature sensitive

PMID:4564200[2] PMID:4597230[3] PMID:1355086[4]

CGSC:64607

at 37C normal growth can be restored

accD ++

Overexpression

Increase Acetyle COA Carboxylase activity upon over expression.

PMID:10893421[5]

See Table 1.

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

JW2313

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCAGCTGGATTGAACGAATTAA

Primer 2:CCGGCCTCAGGTTCCTGATCCGG

9D2

Kohara Phage

Genobase

PMID:3038334[7]

12F12

Kohara Phage

Genobase

PMID:3038334[7]

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[8]

est. P1 cotransduction: 17% [9]
Synonyms:zej-223::Tn10

zfd-1::Tn10

Linked marker

CAG18467 = CGSC7408[8]

est. P1 cotransduction: 4% [9]
Synonyms:zfb-1::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

EcoCyc:EG10217

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10217

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000211

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946796

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0213

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007648

Escherichia coli str. K-12 substr. MG1655

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. ↑ Harder, ME et al. (1972) Temperature-sensitive mutants of Escherichia coli requiring saturated and unsaturated fatty acids for growth: isolation and properties. Proc. Natl. Acad. Sci. U.S.A. 69 3105-9 PubMed
  3. ↑ Silbert, DF et al. (1974) Proceedings: Genetic engineering of membrane lipid. Fed. Proc. 33 1725-32 PubMed
  4. ↑ Li, SJ et al. (1992) The dedB (usg) open reading frame of Escherichia coli encodes a subunit of acetyl-coenzyme A carboxylase. J. Bacteriol. 174 5755-7 PubMed
  5. ↑ Davis, MS et al. (2000) Overproduction of acetyl-CoA carboxylase activity increases the rate of fatty acid biosynthesis in Escherichia coli. J. Biol. Chem. 275 28593-8 PubMed
  6. ↑ 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
  7. ↑ 7.0 7.1 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
  8. ↑ 8.0 8.1 CGSC: The Coli Genetics Stock Center
  9. ↑ 9.0 9.1 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=accD:Gene&oldid=1478770"