accC:Gene: Difference between revisions

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|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Interactions | Genetic Interactions]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Genetic Resources  |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
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{|   id="L46a9f163bbc6a"  class=" tableEdit Gene_nomenclature_table" 
 
|-
!align=left {{table_heading_style}} |Standard name
||
''accC''
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Mnemonic
|
||
''accC''
Acetyl-CoA carboxylase
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK3243, b3256, JW3224''<ref name='LIB:Riley_2006'/>, fabG, JW3224''


|-
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!{{table_heading_style}} |Synonyms
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.17061.L46a9f163bbc6a&page=17061&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
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''ECK3243, b3256, JW3224''<ref name='LIB:Riley_2006'/>
|-
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===Notes===
===Notes===
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{|class = 'sortable' {{Prettytable}} id='144384'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="R46a9f16447f04"  class=" tableEdit Gene_location_table" 
|- {{table_heading_style}}
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!Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|-
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[[BW2952]]
|
 
|
NC_012759: 3291087..3292436<br /><gbrowseImage>
name=NC_012759:3291087..3292436
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|3291087|3292436|GBrowse (BW2952)}}
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MG1655
MG1655
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73.37 minutes&nbsp;
73.37 minutes&nbsp;
|
|
MG1655: 3403939..3405288<br />{{GBrowseFigureByCoord|3402939|3406288|ecoli|MG1655}}
MG1655: 3403939..3405288<br /><gbrowseImage>
name=NC_000913:3403939..3405288
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10276 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10276 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:3402939..3406288 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|3402939|3406288|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:3403939..3405288&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|3403939|3405288|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10276 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10276 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 3333808..3335157<br /><gbrowseImage>
name=NC_012967:3333808..3335157
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|3333808|3335157|GBrowse (REL606)}}
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W3110
W3110
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&nbsp;
&nbsp;
|
|
W3110: 3405772..3407121<br />{{GBrowseFigureByCoord|3404772|3408121|ecoli_W3110|W3110}}
W3110: 3405772..3407121<br /><gbrowseImage>
name=NC_007779:3405772..3407121
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:3404772..3408121 GBrowse(W3110)]
{{GBrowseLink|W3110|NC_007779|3404772|3408121|GBrowse(W3110)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:3405772..3407121&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|W3110|NC_007779|3405772|3407121|FASTA Dump}}
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[[DH10B]]
|
 
|
DH10B: 3501684..3503033<br /><gbrowseImage>
name=NC_010473:3501684..3503033
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|DH10B|NC_010473|3498986|3505731|GBrowse(DH10B)}}
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{{GBrowseFastaLink|DH10B|NC_010473|3498986|3505731|FASTA Dump}}
 
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===Notes===
===Notes===
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!Feature type!!Location!!Description
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
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Coding Start (SO:0000323)
|
[[MG1655]]
|
3403939
|
Edman degradation
|
PMID:1370469<br />PMID:1682920<br />PMID:9298646<br />
|
 
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====Notes====
====Notes====
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="M46a9f165503fd"  class=" tableEdit Gene_allele_table dataTable" 
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!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
|-
|-  
|
accCE23R
|
 
|
E23R
|
 
|
Loss of homodimerization. No effect on ATP binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P24182 UniProt:P24182]
|-
|
accCF363A
|
 
|
F363A
|
 
|
Loss of homodimerization. No effect on ATP binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P24182 UniProt:P24182]
|-
|
accCR366E
|
 
|
R366E
|
 
|
Loss of homodimerization. No effect on ATP binding
|
 
|
 
|
seeded from [http://www.uniprot.org/uniprot/P24182 UniProt:P24182]
|-
|
accCR19E
|
|
&Delta;accC (Keio:)
 
|
|
deletion
R19E
|
|
deletion
 
|
Loss of homodimerization. No effect on ATP binding
|
|


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|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
seeded from [http://www.uniprot.org/uniprot/P24182 UniProt:P24182]  
|-
|
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen] 
''accC<sup>  ++</sup>''
|
|
 
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|
Overexpression
|
Increase Acetyle COA Carboxylase activity upon over expression.
|
PMID:10893421
|
 
|
See Table 1.
 
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{{Gene_alleles_help}}
 
<protect><!--Alleles_notes--></protect>
<protect><!--Alleles_notes--></protect>
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
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!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
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===Notes===


==Genetic Resources==
==Genetic Resources==
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JW3224
JW3224
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[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
|
[[PMID:16769691]]<ref name=PMID:16769691/>
PMID:16769691


Status:Clone OK
Status:Clone OK
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Primer 2:CCTTTTTCCTGAAGACCGAGTTT  
Primer 2:CCTTTTTCCTGAAGACCGAGTTT  
|-
|-
|
[[:Category:Kohara_Phage:21D3|21D3]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=528 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:6G3|6G3]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=529 Genobase]
|
PMID:3038334
|-  
|
|
[[yhcF:Gene|zhc-6::Tn10]]
[[yhcF:Gene|zhc-6::Tn10]]
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CAG12153 = [http://cgsc2.biology.yale.edu/Strain.php?ID=38765 CGSC7442]<ref name='LIB:cgsc'/>
CAG12153 = [http://cgsc2.biology.yale.edu/Strain.php?ID=38765 CGSC7442]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 18% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 18% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:zha-6::Tn10  
Synonyms:zha-6::Tn10  
|-
|-  
|
|
[[acrF:Gene|acrF3083::Tn10]]
[[acrF:Gene|acrF3083::Tn10]]
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CAG12075 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40247 CGSC7447]<ref name='LIB:cgsc'/>
CAG12075 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40247 CGSC7447]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 69% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 69% <ref name='LIB:Nichols_linked_Tn'/> <br />
Synonyms:zhd-3083::Tn10, zhe-3083::Tn10


Synonyms:zhd-3083::Tn10, zhe-3083::Tn10
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===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
|
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10276 EcoCyc:EG10276] 
EcoCyc:EG10276
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0272 EchoBASE:EB0272] 
EcoGene:EG10276
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3256 EcoliGenExpDB:b3256] 
RegulonDB:ECK120000270
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
|
|
[http://BioCyc.org/ECOL199310/new-image?object=C4012 ECOL199310CYC:C4012]
[http://www.ncbi.nlm.nih.gov/gene?term=947761 GeneID:947761]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10276 EcoGene:EG10276] 
EchoBASE:EB0272
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[ASAP]]
|
|
[http://BioCyc.org/ECOO157/new-image?object=ACCC ECOO157CYC:ACCC] 
ASAP:ABE-0010677
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
 
|
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[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.17061.A46a9f166ac023&page=17061&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
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[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/29834 CGSC:29834]
|
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===Notes===
===Notes===
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===Categories===
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Gene List:W3110]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes not in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:acc genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:46, 19 September 2013

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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

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

Standard name

accC

Mnemonic

Acetyl-CoA carboxylase

Synonyms

ECK3243, b3256, JW3224[1], fabG, JW3224

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Notes

Location(s) and DNA Sequence

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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: 3291087..3292436
<gbrowseImage> name=NC_012759:3291087..3292436 source=BW2952 preset=GeneLocation </gbrowseImage>

MG1655

73.37 minutes 

MG1655: 3403939..3405288
<gbrowseImage> name=NC_000913:3403939..3405288 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3333808..3335157
<gbrowseImage> name=NC_012967:3333808..3335157 source=REL606 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3405772..3407121
<gbrowseImage> name=NC_007779:3405772..3407121 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3501684..3503033
<gbrowseImage> name=NC_010473:3501684..3503033 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

3403939

Edman degradation

PMID:1370469[2]
PMID:1682920[3]
PMID:9298646[4]


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Notes

Alleles and Phenotypes

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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

accCE23R

E23R

Loss of homodimerization. No effect on ATP binding

seeded from UniProt:P24182

accCF363A

F363A

Loss of homodimerization. No effect on ATP binding

seeded from UniProt:P24182

accCR366E

R366E

Loss of homodimerization. No effect on ATP binding

seeded from UniProt:P24182

accCR19E

R19E

Loss of homodimerization. No effect on ATP binding

seeded from UniProt:P24182

accC ++

Overexpression

Increase Acetyle COA Carboxylase activity upon over expression.

PMID:10893421[5]

See Table 1.

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Notes

Genetic Interactions

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

Genetic Resources

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

Resource Resource Type Source Notes/Reference

JW3224

Plasmid clone

Shigen

PMID:16769691[6]

Status:Clone OK

Primer 1:GCCCTGGATAAAATTGTTATTGC

Primer 2:CCTTTTTCCTGAAGACCGAGTTT

21D3

Kohara Phage

Genobase

PMID:3038334[7]

6G3

Kohara Phage

Genobase

PMID:3038334[7]

zhc-6::Tn10

Linked marker

CAG12153 = CGSC7442[8]

est. P1 cotransduction: 18% [9]
Synonyms:zha-6::Tn10

acrF3083::Tn10

Linked marker

CAG12075 = CGSC7447[8]

est. P1 cotransduction: 69% [9]
Synonyms:zhd-3083::Tn10, zhe-3083::Tn10

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Notes

Accessions in Other Databases

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

Database Accession Notes

EcoCyc

EcoCyc:EG10276

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10276

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000270

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947761

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0272

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010677

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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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. ↑ Li, SJ & Cronan, JE Jr (1992) The gene encoding the biotin carboxylase subunit of Escherichia coli acetyl-CoA carboxylase. J. Biol. Chem. 267 855-63 PubMed
  3. ↑ Kondo, H et al. (1991) Acetyl-CoA carboxylase from Escherichia coli: gene organization and nucleotide sequence of the biotin carboxylase subunit. Proc. Natl. Acad. Sci. U.S.A. 88 9730-3 PubMed
  4. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 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

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