carB:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
edited by 127.0.0.1 via TableEdit
touch
 
(44 intermediate revisions by 4 users not shown)
Line 14: Line 14:
|{{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]]
Line 21: Line 23:
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
|}
[[Category:Gene List:MG1655]][[Category:Gene List:W3110]][[Category:Genes in the Keio knockout collection]][[Category:Genes in the ASKA clone collection]]
</noinclude><protect>
</noinclude><protect>
==Nomenclature==
==Nomenclature==
Line 28: Line 29:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **  
*
*  
****************************************************************************************** -->
****************************************************************************************** -->{{Gene_nomenclature_help}}
{|{{Prettytable}}
{|  id="U46a9a6f6a3850"  class=" tableEdit Gene_nomenclature_table" 
 
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
|
||
''carB''  
''carB''
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
|
||
Carbamoyl P<ref name='LIB:EcoGene'/>
Carbamoyl P
|-
|-
!{{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK0034, b0033, JW0031, arg+ura, cap, pyrA''<ref name='LIB:Riley_2006'/>
''ECK0034, b0033, JW0031, arg+ura, cap, pyrA''<ref name='LIB:Riley_2006'/>, pyrA''
|-
 
|colspan='2'|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.U46a9a6f6a3850&page=10645&pagename={{FULLPAGENAMEE}} edit table]
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.U46a9a6f6a3850&page=10645&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.U46a9a6f6a3850-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.U46a9a6f6a3850-->
{{Gene_nomenclature_help}}
 
<!--Nomenclature_notes--></protect>
<!--Nomenclature_notes--></protect>
===Notes===
===Notes===
Line 58: Line 61:
<protect>
<protect>
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.A46a9a6f7282a8-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.A46a9a6f7282a8-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='125133'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Gene_location_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="A46a9a6f7282a8"  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
|-
|-  
|
|
MG1655
MG1655
Line 68: Line 76:
0.66 minutes&nbsp;
0.66 minutes&nbsp;
|
|
MG1655: 30817..34038<br />{{GBrowseFigureByCoord|29817|35038|ecoli|MG1655}}
MG1655: 30817..34038<br /><gbrowseImage>
name=NC_000913:30817..34038
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10135 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10135 EcoCyc]
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?q=MG1655:29817..35038 GBrowse(MG1655)]
{{GBrowseLink|MG1655|NC_000913|29817|35038|GBrowse(MG1655)}}
   
   
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli/?plugin=FastaDumper&name=MG1655:30817..34038&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|MG1655|NC_000913|30817|34038|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10135 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10135 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 34888..38109<br /><gbrowseImage>
name=NC_012967:34888..38109
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|34888|38109|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|34888|38109|FASTA Dump}}
|-
|
[[BW2952]]
|
 
|
NC_012759: 30817..34038<br /><gbrowseImage>
name=NC_012759:30817..34038
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|30817|34038|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|30817|34038|FASTA Dump}}
|-  
|
|
W3110
W3110
Line 82: Line 127:
&nbsp;
&nbsp;
|
|
W3110: 30817..34038<br />{{GBrowseFigureByCoord|29817|35038|ecoli_W3110|W3110}}
W3110: 30817..34038<br /><gbrowseImage>
name=NC_007779:30817..34038
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?q=W3110:29817..35038 GBrowse(W3110)]
{{GBrowseLink|W3110|NC_007779|29817|35038|GBrowse(W3110)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:30817..34038&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|W3110|NC_007779|30817|34038|FASTA Dump}}
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.A46a9a6f7282a8&page=10645&pagename={{FULLPAGENAMEE}} edit table] || || || ||
|
[[DH10B]]
|
 
|
DH10B: 30817..34038<br /><gbrowseImage>
name=NC_010473:30817..34038
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|DH10B|NC_010473|24375|40480|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|DH10B|NC_010473|24375|40480|FASTA Dump}}
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.A46a9a6f7282a8&page=10645&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.A46a9a6f7282a8-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.A46a9a6f7282a8-->
{{Gene_location_help}}
 
<!--Location_notes--></protect>
<!--Location_notes--></protect>
===Notes===
===Notes===
Line 99: Line 166:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.W46a9a6f7c3da3-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.W46a9a6f7c3da3-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='125134'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Gene_sequence_features_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="W46a9a6f7c3da3"  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='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.W46a9a6f7c3da3&page=10645&pagename={{FULLPAGENAMEE}} edit table] || ||
|
Coding Start (SO:0000323)
|
[[MG1655]]
|
30820
|
Edman degradation
|
PMID:6308632<br />
|
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.W46a9a6f7c3da3&page=10645&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table]</span> || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.W46a9a6f7c3da3-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.W46a9a6f7c3da3-->
{{Gene_sequence_features_help}}
 
<protect><!--Sequence_notes--></protect>
<protect><!--Sequence_notes--></protect>
====Notes====
====Notes====
Line 115: Line 201:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.P46a9a6f80ff85-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.P46a9a6f80ff85-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='125135'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Gene_alleles_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="P46a9a6f80ff85"  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
|-
|-  
|
|
&Delta;carB (Keio:JW0031)
''carB(del)'' (Keio:JW0031)
|
|
deletion
deletion
Line 131: Line 222:


|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]
 
[http://cgsc2.biology.yale.edu/Strain.php?ID=106630 CGSC8349]<ref name='LIB:cgsc'/>
|
|
   
   
|-
|-  
|
|
carB96::Tn10
carB96::Tn10
Line 153: Line 246:
|
|
Synonyms: car-96::Tn10  
Synonyms: car-96::Tn10  
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.P46a9a6f80ff85&page=10645&pagename={{FULLPAGENAMEE}} edit table] || || || || || || ||
|
''carB671''
|
 
|
 
|
 
|
 
|
PMID:4373646
|
[[cgscmutation:5037|CGSC:5037]]
|
|-
|
''carB8(del)''
|
 
|
 
|
 
|
 
|
 
|
[[cgscmutation:6595|CGSC:6595]]
|
|-
|
''carB96::Tn10''
|
 
|
 
|
 
|
 
|
 
|
[[cgscmutation:7106|CGSC:7106]]
|
|-
|
''carB3092::Tn10kan''
|
 
|
 
|
 
|
 
|
 
|
[[cgscmutation:38009|CGSC:38009]]
|
|-
|
''carB745(del)::kan''
|
 
|
 
|
 
|
 
|
PMID:16738554
|
[[cgscmutation:100240|CGSC:100240]]
|
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.P46a9a6f80ff85&page=10645&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table]</span> || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.P46a9a6f80ff85-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.P46a9a6f80ff85-->
{{Gene_alleles_help}}
 
<protect><!--Alleles_notes--></protect>
<protect><!--Alleles_notes--></protect>
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.10645.T4e04b8786c107-->
<!--
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Genetic_interaction_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="T4e04b8786c107"  class=" tableEdit Genetic_interaction_table dataTable" 
|- {{table_heading_style}}
!|Interactor!!Interaction!!Allele!!Score(s)!!Reference(s)!!Accessions!!Notes
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=bc145ea147f7e36caf09c1bfeed4ee9d.10645.T4e04b8786c107&page=10645&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.10645.T4e04b8786c107--></protect>
<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.V46a9a6f8ab9b1-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.V46a9a6f8ab9b1-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='125136'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Gene_resources_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V46a9a6f8ab9b1"  class=" tableEdit Gene_resource_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
|-
|-  
|
|
JW0031
JW0031
Line 177: Line 383:
[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
Line 184: Line 390:


Primer 2:CCTTTGATCTGTGCGTGCATTTC  
Primer 2:CCTTTGATCTGTGCGTGCATTTC  
|-
|-
|
[[:Category:Kohara_Phage:22B12|22B12]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=103 Genobase]
|
PMID:3038334
|-  
|
|
[[thrA:Gene|thrA34::Tn10]]
[[thrA:Gene|thrA34::Tn10]]
Line 192: Line 407:
CAG18442 = [http://cgsc2.biology.yale.edu/Strain.php?ID=38985 CGSC7320]<ref name='LIB:cgsc'/>
CAG18442 = [http://cgsc2.biology.yale.edu/Strain.php?ID=38985 CGSC7320]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 30% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 30% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:thr-34::Tn10  
Synonyms:thr-34::Tn10  
|-
|-  
|
|
leuO3051::Tn10
leuO3051::Tn10
Line 203: Line 417:
CAG12095 = [http://cgsc2.biology.yale.edu/Strain.php?ID=37901 CGSC7324]<ref name='LIB:cgsc'/>
CAG12095 = [http://cgsc2.biology.yale.edu/Strain.php?ID=37901 CGSC7324]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 8% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 8% <ref name='LIB:Nichols_linked_Tn'/> <br />
 
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).
Synonyms:zab-3051::Tn10  


 
|- class="tableEdit_footer"
The start of leuO was reannotated by Riley et al. (2006).
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.V46a9a6f8ab9b1&page=10645&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table]</span> || || ||
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.V46a9a6f8ab9b1&page=10645&pagename={{FULLPAGENAMEE}} edit table] || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.V46a9a6f8ab9b1-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.V46a9a6f8ab9b1-->
{{Gene_resources_help}}
 
<protect><!--Gene_resources_notes--></protect>
<protect><!--Gene_resources_notes--></protect>
===Notes===
===Notes===
Line 221: Line 432:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.C46a9a6f940176-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.C46a9a6f940176-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='125137'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Gene_accessions_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="C46a9a6f940176"  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]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10135 EcoCyc:EG10135] 
EcoCyc:EG10135
|
|
''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=EB0133 EchoBASE:EB0133] 
EcoGene:EG10135
|
|
''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=b0033 EcoliGenExpDB:b0033] 
RegulonDB:ECK120000131
|
|
''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=C0041 ECOL199310CYC:C0041]
[http://www.ncbi.nlm.nih.gov/gene?term=944775 GeneID:944775]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10135 EcoGene:EG10135] 
EchoBASE:EB0133
|
|
''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=CARB ECOO157CYC:CARB] 
ASAP:ABE-0000121
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
 
|
|- class="tableEdit_footer"
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.C46a9a6f940176&page=10645&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/935 CGSC:935] 
|
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.C46a9a6f940176&page=10645&pagename={{FULLPAGENAMEE}} edit table] || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.C46a9a6f940176-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.C46a9a6f940176-->
{{Gene_accessions_help}}
 
<protect><!--Gene_accessions_notes--></protect>
<protect><!--Gene_accessions_notes--></protect>
===Notes===
===Notes===
Line 286: Line 496:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.F46a6742c84a01-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.F46a6742c84a01-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='96159'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46a6742c84a01"  class=" tableEdit Links_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Name!!URL!!Comments
!|Name!!URL!!Comments
|-class='sortbottom'
 
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.10645.F46a6742c84a01&page=10645&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.10645.F46a6742c84a01&page=10645&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.F46a6742c84a01-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.10645.F46a6742c84a01-->
{{Links_help}}
 


<noinclude><protect>
<noinclude><protect>
Line 300: Line 516:
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</protect></noinclude>
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:car genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:36, 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

carB

Mnemonic

Carbamoyl P

Synonyms

ECK0034, b0033, JW0031, arg+ura, cap, pyrA[1], pyrA

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

0.66 minutes 

MG1655: 30817..34038
<gbrowseImage> name=NC_000913:30817..34038 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 34888..38109
<gbrowseImage> name=NC_012967:34888..38109 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 30817..34038
<gbrowseImage> name=NC_012759:30817..34038 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 30817..34038
<gbrowseImage> name=NC_007779:30817..34038 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 30817..34038
<gbrowseImage> name=NC_010473:30817..34038 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

Coding Start (SO:0000323)

MG1655

30820

Edman degradation

PMID:6308632[2]


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

carB(del) (Keio:JW0031)

deletion

deletion

PMID:16738554[3]

Shigen

CGSC8349[4]

carB96::Tn10

Insertion at 33,963 bp in MG1655 (NC_000913)

adapted from Nichols et al.[5]

CAG12093 = CGSC7322[4]

Synonyms: car-96::Tn10

carB671

PMID:4373646[6]

CGSC:5037

carB8(del)

CGSC:6595

carB96::Tn10

CGSC:7106

carB3092::Tn10kan

CGSC:38009

carB745(del)::kan

PMID:16738554[3]

CGSC:100240


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

JW0031

Plasmid clone

Shigen

PMID:16769691[7]

Status:Clone OK

Primer 1:GCCCCAAAACGTACAGATATAAA

Primer 2:CCTTTGATCTGTGCGTGCATTTC

22B12

Kohara Phage

Genobase

PMID:3038334[8]

thrA34::Tn10

Linked marker

CAG18442 = CGSC7320[4]

est. P1 cotransduction: 30% [5]
Synonyms:thr-34::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[4]

est. P1 cotransduction: 8% [5]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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:EG10135

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10135

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000131

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944775

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0133

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000121

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. ↑ Nyunoya, H & Lusty, CJ (1983) The carB gene of Escherichia coli: a duplicated gene coding for the large subunit of carbamoyl-phosphate synthetase. Proc. Natl. Acad. Sci. U.S.A. 80 4629-33 PubMed
  3. ↑ 3.0 3.1 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
  4. ↑ 4.0 4.1 4.2 4.3 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 5.2 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).
  6. ↑ Mergeay, M et al. (1974) Physiology and genetics of carbamoylphosphate synthesis in Escherichia coli K12. Mol. Gen. Genet. 133 299-316 PubMed
  7. ↑ 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
  8. ↑ 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

Categories

Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=carB:Gene&oldid=1477802"