cpxA:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
Edited by wikibot
touch
 
(37 intermediate revisions by 3 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 27: 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="Y46aa0212377ee"  class=" tableEdit Gene_nomenclature_table" 
 
|-
|-
!{{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
|
||
''cpxA''  
''cpxA''
|-
|-
!{{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
|
||
 
Conjugative plasmid expression
|-
|-
!{{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
|
||
''ECK3904, b3911, JW3882, ecfB, eup, ssd, rssE, ecf''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
''ECK3904, b3911, JW3882, ecfB, eup, ssd, rssE, ecf''<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
|-
 
|colspan='2'|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.Y46aa0212377ee&page=18383&pagename={{FULLPAGENAMEE}} edit table]
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.Y46aa0212377ee&page=18383&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.Y46aa0212377ee-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.Y46aa0212377ee-->
{{Gene_nomenclature_help}}
 
<!--Nomenclature_notes--></protect>
<!--Nomenclature_notes--></protect>
===Notes===
===Notes===
Line 59: Line 63:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** 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_location_help}}
{|class = 'sortable' {{Prettytable}} id='148355'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46aa0212badb2"  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 72: Line 76:
88.4 minutes&nbsp;
88.4 minutes&nbsp;
|
|
MG1655: 4102998..4101625<br />{{GBrowseFigureByCoord|4100625|4103998|ecoli|MG1655}}
MG1655: 4102998..4101625<br /><gbrowseImage>
name=NC_000913:4101625..4102998
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10163 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10163 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|4100625|4103998|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|4100625|4103998|GBrowse(MG1655)}}
   
   
|
|
{{GBrowseFastaLink|ecoli|NC_000913|4101625|4102998|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|4101625|4102998|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10163 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG10163 EcoCyc Sequence Dump]  
|-
|-
|
[[REL606]]
|
 
|
NC_012967: 4084457..4083084<br /><gbrowseImage>
name=NC_012967:4083084..4084457
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|4083084|4084457|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|4083084|4084457|FASTA Dump}}
|-
|
[[BW2952]]
|
 
|
NC_012759: 3991294..3992667<br /><gbrowseImage>
name=NC_012759:3991294..3992667
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|BW2952|NC_012759|3991294|3992667|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|NC_012759|3991294|3992667|FASTA Dump}}
|-  
|
|
W3110
W3110
Line 86: Line 127:
&nbsp;
&nbsp;
|
|
W3110: 3531706..3533079<br />{{GBrowseFigureByCoord|3530706|3534079|ecoli_W3110|W3110}}  
W3110: 3531706..3533079<br /><gbrowseImage>
name=NC_007779:3531706..3533079
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|W3110|NC_007779|3530706|3534079|GBrowse(W3110)}}
|
{{GBrowseFastaLink|W3110|NC_007779|3531706|3533079|FASTA Dump}}  
|-
|
[[DH10B]]
|
 
|
DH10B: 4202695..4201322<br /><gbrowseImage>
name=NC_010473:4201322..4202695
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|3530706|3534079|GBrowse(W3110)}}  
{{GBrowseLink|DH10B|NC_010473|4198576|4205441|GBrowse(DH10B)}}
|
|
*[http://dimer.tamu.edu/cgi-bin/gb/gbrowse/ecoli_W3110/?plugin=FastaDumper&name=W3110:3531706..3533079&plugin_action=Go FASTA Dump]
{{GBrowseFastaLink|DH10B|NC_010473|4198576|4205441|FASTA Dump}}
|-class='sortbottom'
 
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.G46aa0212badb2&page=18383&pagename={{FULLPAGENAMEE}} edit table] || || || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.G46aa0212badb2&page=18383&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.G46aa0212badb2-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.G46aa0212badb2-->
{{Gene_location_help}}
 
<!--Location_notes--></protect>
<!--Location_notes--></protect>
===Notes===
===Notes===
Line 105: Line 168:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** 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_sequence_features_help}}
{|class = 'sortable' {{Prettytable}} id='148356'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="B46aa0213804c4"  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}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.B46aa0213804c4&page=18383&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.B46aa0213804c4&page=18383&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table]</span> || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.B46aa0213804c4-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.B46aa0213804c4-->
{{Gene_sequence_features_help}}
 
<protect><!--Sequence_notes--></protect>
<protect><!--Sequence_notes--></protect>
====Notes====
====Notes====
Line 129: Line 193:
*  ** 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_alleles_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" {{Prettytable}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;" id="L46aa0213cafef"  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 145: Line 209:


|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=109080 CGSC10799]<ref name='LIB:cgsc'/>  
[http://www.shigen.nig.ac.jp/ecoli/strain/keioCollectionQueryAction.do Shigen]<br>[http://cgsc2.biology.yale.edu/Strain.php?ID=109080 CGSC10799]<ref name='LIB:cgsc'/>  
Line 162: Line 226:
temperature sensitive
temperature sensitive
|
|
[[PMID:6998969]]<ref name=PMID:6998969/>
PMID:6998969
|
|
[[cgscmutation:10943|CGSC:10943]]
[[cgscmutation:10943|CGSC:10943]]
Line 179: Line 243:


|
|
[[PMID:16738554]]<ref name=PMID:16738554/>
PMID:16738554
|
|
[[cgscmutation:100386|CGSC:100386]]
[[cgscmutation:100386|CGSC:100386]]
|
|
   
   
|-
|
''cpxA2''
|
|
|
Resistant to
|
Resistance to Amikacin
|
PMID:2185221
|
Strain: AE2038
|
Figure 1
|-
|
''ecfB1''
|
|
|
Resistant to
|
Resistance to 90 micrograms/ml Kanamycin 
|
PMID:353502
|
Strain: GE444
|
See table 2.
|-
|
''cpxA'' in strains KEC1 - KEC30
|


|-class='sortbottom'
|
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.L46aa0213cafef&page=18383&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table] || || || || || || ||
 
|
Carbon Utilization
|
Carbon utilization of L-Serine
|
PMID:6802799
|
* Parent strain: CU1008
**Strain: KEC1 - KEC20
 
*Parent Strain: W4977
**Strain: KEC21-KEC30
|
See table one and Results section
|-
|
''ssd'' in mutant strain KEC3
|
 
|
 
|
Resistant to
|
Resistant to Kanamycin
|
PMID:6802799
|
Strain: KEC3
|
see table 2
|-
|
''ssd'' in mutant strain KEC3
|
 
|
 
|
Resistant to
|
Resistant to Neomycin
|
PMID:6802799
|
Strain: KEC3
|
Table 2
|-
|
''ecfB1'' ''kanA10''
|
 
|
 
|
Resistant to
|
Resistance to Aminoglycoside Kanamycin
|
PMID:353502
|
Strain: GE442
 
Parental: AB663
|
See details for subclass A for Kanomycin [http://biocyc.org/META/NEW-IMAGE?type=COMPOUND&object=CPD-4821 here]
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.L46aa0213cafef&page=18383&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table]</span> || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.L46aa0213cafef-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.L46aa0213cafef-->
{{Gene_alleles_help}}
 
<protect><!--Alleles_notes--></protect>
<protect><!--Alleles_notes--></protect>
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18383.S4e04b8f8f3192-->
<!--
******************************************************************************************
*
*  ** 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="S4e04b8f8f3192"  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.18383.S4e04b8f8f3192&page=18383&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18383.S4e04b8f8f3192--></protect>
<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
Line 199: Line 393:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** 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_resources_help}}
{|class = 'sortable' {{Prettytable}} id='148358'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="B46aa021490523"  class=" tableEdit Gene_resource_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
|-
|-  
|
|
JW3882
JW3882
Line 214: Line 408:
[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 221: Line 415:


Primer 2:CCACTCCGCTTATACAGCGGCAA  
Primer 2:CCACTCCGCTTATACAGCGGCAA  
|-
|-
|
[[:Category:Kohara_Phage:8B10|8B10]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=540 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:4B6|4B6]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=541 Genobase]
|
PMID:3038334
|-  
|
|
[[yihO:Gene|zih-35::Tn10]]
[[yihO:Gene|zih-35::Tn10]]
Line 230: Line 442:
|
|
est. P1 cotransduction: 21% <ref name='LIB:Nichols_linked_Tn'/>  
est. P1 cotransduction: 21% <ref name='LIB:Nichols_linked_Tn'/>  
|-
|-  
|
|
[[pflD:Gene|pflD501::Tn10]]
[[pflD:Gene|pflD501::Tn10]]
Line 238: Line 450:
CAG18477 = [http://cgsc2.biology.yale.edu/Strain.php?ID=37152 CGSC7470]<ref name='LIB:cgsc'/>
CAG18477 = [http://cgsc2.biology.yale.edu/Strain.php?ID=37152 CGSC7470]<ref name='LIB:cgsc'/>
|
|
est. P1 cotransduction: 17% <ref name='LIB:Nichols_linked_Tn'/>
est. P1 cotransduction: 17% <ref name='LIB:Nichols_linked_Tn'/> <br />
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).


Synonyms:zij-501::Tn10
|- class="tableEdit_footer"
 
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.B46aa021490523&page=18383&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table]</span> || || ||
 
CAG18477 also carries metF79(Am) (CGSC).
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.B46aa021490523&page=18383&pagename={{FULLPAGENAMEE}} edit table] || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.B46aa021490523-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.B46aa021490523-->
{{Gene_resources_help}}
 
<protect><!--Gene_resources_notes--></protect>
<protect><!--Gene_resources_notes--></protect>
===Notes===
===Notes===
Line 261: Line 470:
*  ** 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_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46aa02153d45d"  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=EG10163 EcoCyc:EG10163]
EcoCyc:EG10163
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0161 EchoBASE:EB0161]
|
|-
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3911 EcoliGenExpDB:b3911]
|
|-  
|-  
|
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://BioCyc.org/ECOL199310/new-image?object=C4863 ECOL199310CYC:C4863]
EcoGene:EG10163
|
|
''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=EG10163 EcoGene:EG10163]
RegulonDB:ECK120000159
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI] ([[NCBI|EcoliWiki Page]])
|
|
[http://BioCyc.org/ECOO157/new-image?object=CPXA ECOO157CYC:CPXA]
[http://www.ncbi.nlm.nih.gov/gene?term=948405 GeneID:948405]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/908 CGSC:908]
EchoBASE:EB0161
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
[[ASAP]]
|
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012772&formSubmitReturn=1 ASAP:ABE-0012772] 
ASAP:ABE-0012772
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.G46aa02153d45d&page=18383&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.G46aa02153d45d&page=18383&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.G46aa02153d45d-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.G46aa02153d45d-->
{{Gene_accessions_help}}
 
<protect><!--Gene_accessions_notes--></protect>
<protect><!--Gene_accessions_notes--></protect>
===Notes===
===Notes===
Line 336: Line 531:
<!--
<!--
******************************************************************************************
******************************************************************************************
*
*  
*  ** 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. **  
*
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|class = 'sortable' {{Prettytable}} id='100016'
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46a71bb773cd1"  class=" tableEdit Links_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Name!!URL!!Comments
!|Name!!URL!!Comments
|-class='sortbottom'
 
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.G46a71bb773cd1&page=18383&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18383.G46a71bb773cd1&page=18383&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.G46a71bb773cd1-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18383.G46a71bb773cd1-->
{{Links_help}}
 


<noinclude><protect>
<noinclude><protect>
Line 353: Line 549:
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</protect></noinclude>
===Categories===
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:MG1655]]
Line 361: Line 556:
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:cpx genes]]
[[Category:cpx genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:50, 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

cpxA

Mnemonic

Conjugative plasmid expression

Synonyms

ECK3904, b3911, JW3882, ecfB, eup, ssd, rssE, ecf[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

88.4 minutes 

MG1655: 4102998..4101625
<gbrowseImage> name=NC_000913:4101625..4102998 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4084457..4083084
<gbrowseImage> name=NC_012967:4083084..4084457 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3991294..3992667
<gbrowseImage> name=NC_012759:3991294..3992667 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3531706..3533079
<gbrowseImage> name=NC_007779:3531706..3533079 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4202695..4201322
<gbrowseImage> name=NC_010473:4201322..4202695 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

ΔcpxA (Keio:JW3882)

deletion

deletion

PMID:16738554[3]

Shigen
CGSC10799[4]

cpxA2(ts)

temperature sensitive

PMID:6998969[5]

CGSC:10943

ΔcpxA771::kan

PMID:16738554[3]

CGSC:100386

cpxA2

Resistant to

Resistance to Amikacin

PMID:2185221[6]

Strain: AE2038

Figure 1

ecfB1

Resistant to

Resistance to 90 micrograms/ml Kanamycin

PMID:353502[7]

Strain: GE444

See table 2.

cpxA in strains KEC1 - KEC30

Carbon Utilization

Carbon utilization of L-Serine

PMID:6802799[8]

  • Parent strain: CU1008
    • Strain: KEC1 - KEC20
  • Parent Strain: W4977
    • Strain: KEC21-KEC30

See table one and Results section

ssd in mutant strain KEC3

Resistant to

Resistant to Kanamycin

PMID:6802799[8]

Strain: KEC3

see table 2

ssd in mutant strain KEC3

Resistant to

Resistant to Neomycin

PMID:6802799[8]

Strain: KEC3

Table 2

ecfB1 kanA10

Resistant to

Resistance to Aminoglycoside Kanamycin

PMID:353502[7]

Strain: GE442

Parental: AB663

See details for subclass A for Kanomycin here

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

JW3882

Plasmid clone

Shigen

PMID:16769691[9]

Status:Clone OK

Primer 1:GCCATAGGCAGCTTAACCGCGCG

Primer 2:CCACTCCGCTTATACAGCGGCAA

8B10

Kohara Phage

Genobase

PMID:3038334[10]

4B6

Kohara Phage

Genobase

PMID:3038334[10]

zih-35::Tn10

Linked marker

CAG18495 = CGSC7467[4]

est. P1 cotransduction: 21% [11]

pflD501::Tn10

Linked marker

CAG18477 = CGSC7470[4]

est. P1 cotransduction: 17% [11]
Synonyms:zij-501::Tn10 nnnCAG18477 also carries metF79(Am) (CGSC).

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:EG10163

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10163

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000159

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948405

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0161

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012772

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. ↑ EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  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 CGSC: The Coli Genetics Stock Center
  5. ↑ McEwen, J & Silverman, P (1980) Genetic analysis of Escherichia coli K-12 chromosomal mutants defective in expression of F-plasmid functions: identification of genes cpxA and cpxB. J. Bacteriol. 144 60-7 PubMed
  6. ↑ Rainwater, S & Silverman, PM (1990) The Cpx proteins of Escherichia coli K-12: evidence that cpxA, ecfB, ssd, and eup mutations all identify the same gene. J. Bacteriol. 172 2456-61 PubMed
  7. ↑ 7.0 7.1 Thorbjarnardóttir, SH et al. (1978) Mutations determining generalized resistance to aminoglycoside antibiotics in Escherichia coli. Mol. Gen. Genet. 161 89-98 PubMed
  8. ↑ 8.0 8.1 8.2 Newman, EB et al. (1982) L-serine degradation in Escherichia coli K-12: directly isolated ssd mutants and their intragenic revertants. J. Bacteriol. 150 710-5 PubMed
  9. ↑ 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
  10. ↑ 10.0 10.1 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
  11. ↑ 11.0 11.1 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=cpxA:Gene&oldid=1480362"