dipZ:Gene: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
Fixing zoom on GBrowse image.
touch
 
(29 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 31: Line 33:
*  
*  
****************************************************************************************** -->{{Gene_nomenclature_help}}
****************************************************************************************** -->{{Gene_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{|   id="U46aa0801ad013" class=" tableEdit Gene_nomenclature_table"


|-
|-
!align=left {{table_heading_style}} |Standard name
!align=left {{table_heading_style}} |Standard name
||
||
''dipZ''  
''dsbD''
|-
|-
!align=left {{table_heading_style}} |Mnemonic
!align=left {{table_heading_style}} |Mnemonic
||
||
 
Disulfide bond
|-
|-
!align=left {{table_heading_style}} |Synonyms
!align=left {{table_heading_style}} |Synonyms
||
||
''dipZ, ECK4130, b4136, JW5734, cutA2, cycZ, htrI'', dsbD<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>
''dipZ, ECK4130, b4136, JW5734, cutA2, cycZ, htrI'', dsbD<ref name='LIB:Riley_2006'/><ref name='LIB:EcoCyc10.6'/>, htrI''


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.U46aa0801ad013&page=18833&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.U46aa0801ad013&page=18833&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.U46aa0801ad013-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.U46aa0801ad013-->
Line 65: Line 67:
*  
*  
****************************************************************************************** -->{{Gene_location_help}}
****************************************************************************************** -->{{Gene_location_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="I46aa08023c5d9"  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 74: Line 76:
94 minutes, 94 minutes&nbsp;
94 minutes, 94 minutes&nbsp;
|
|
MG1655: 4363065..4361368<br />{{GBrowseFigureByCoord|4361368|4363065|ecoli|MG1655}}
MG1655: 4363065..4361368<br /><gbrowseImage>
name=NC_000913:4361368..4363065
source=MG1655
preset=GeneLocation
</gbrowseImage>
 
|
|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG12178 EcoCyc]
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG12178 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|4360368|4364065|GBrowse(MG1655)}}
{{GBrowseLink|MG1655|NC_000913|4360368|4364065|GBrowse(MG1655)}}
   
   
|
|
{{GBrowseFastaLink|ecoli|NC_000913|4361368|4363065|FASTA Dump}}
{{GBrowseFastaLink|MG1655|NC_000913|4361368|4363065|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG12178 EcoCyc Sequence Dump]  
*[http://biocyc.org/ECOLI/sequence?object=EG12178 EcoCyc Sequence Dump]  
|-  
|-  
Line 88: Line 95:
&nbsp;
&nbsp;
|
|
W3110: 4369720..4368023<br />{{GBrowseFigureByCoord|4368023|4369720|ecoli_W3110|W3110}}
W3110: 4369720..4368023<br /><gbrowseImage>
name=NC_007779:4368023..4369720
source=W3110
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_W3110|AC_000091|4367023|4370720|GBrowse(W3110)}}  
{{GBrowseLink|W3110|NC_007779|4367023|4370720|GBrowse(W3110)}}  
|
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|4368023|4369720|FASTA Dump}}  
{{GBrowseFastaLink|W3110|NC_007779|4368023|4369720|FASTA Dump}}  
|-  
|-  
|
|
Line 99: Line 111:


|
|
DH10B: 4463427..4461730<br />{{GBrowseFigureByCoord|4461730|4463427|ecoli_DH10B|DH10B}}
DH10B: 4463427..4461730<br /><gbrowseImage>
name=NC_010473:4461730..4463427
source=DH10B
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|DH10B|NC_010473|4458336|4466821|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|DH10B|NC_010473|4458336|4466821|FASTA Dump}}  
|-
|
[[REL606]]
|
 
|
NC_012967: 4343763..4342066<br /><gbrowseImage>
name=NC_012967:4342066..4343763
source=REL606
preset=GeneLocation
</gbrowseImage>
 
|
{{GBrowseLink|REL606|NC_012967|4342066|4343763|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|4342066|4343763|FASTA Dump}} 
|-
|
[[BW2952]]
|
 
|
NC_012759: 4300103..4301800<br /><gbrowseImage>
name=NC_012759:4300103..4301800
source=BW2952
preset=GeneLocation
</gbrowseImage>
 
|
|
{{GBrowseLink|ecoli_DH10B|NC_010473|4458336|4466821|GBrowse(DH10B)}}
{{GBrowseLink|BW2952|NC_012759|4300103|4301800|GBrowse(BW2952)}}
|
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|4458336|4466821|FASTA Dump}}  
{{GBrowseFastaLink|BW2952|NC_012759|4300103|4301800|FASTA Dump}}  


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.I46aa08023c5d9&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table] || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.I46aa08023c5d9&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.I46aa08023c5d9-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.I46aa08023c5d9-->
Line 123: Line 172:
*  
*  
****************************************************************************************** -->{{Gene_sequence_features_help}}
****************************************************************************************** -->{{Gene_sequence_features_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="I46aa08030476e"  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'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.I46aa08030476e&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.I46aa08030476e&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table]</span> || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.I46aa08030476e-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.I46aa08030476e-->
Line 145: Line 194:
*  
*  
****************************************************************************************** -->{{Gene_alleles_help}}
****************************************************************************************** -->{{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="Z46aa08034fc63"  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 182: Line 231:
|
|
   
   
|-
|
''ΔdsbD''
|
|
|


|-class='sortbottom'
|
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.Z46aa08034fc63&page=18833&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table] || || || || || || ||
 
|
PMID:9335267, PMID:10545108
|
 
|
This
strain contains an internal in-frame deletion of 536 codons of the dsbD
gene. We replaced the deleted DNA sequences by an EcoRI site,
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.Z46aa08034fc63&page=18833&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table]</span> || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.Z46aa08034fc63-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.Z46aa08034fc63-->
Line 191: Line 259:
===Notes===
===Notes===


==Genetic Interactions==
{{BacktoTop}}
<protect><!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18833.I4e04b9e1ba7d3-->
<!--
******************************************************************************************
*
*  ** 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="I4e04b9e1ba7d3"  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.18833.I4e04b9e1ba7d3&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Genetic_interaction_table edit table]</span> || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.18833.I4e04b9e1ba7d3--></protect>
<!-- Genetic Interacdtions Notes -->
===Notes===


==Genetic Resources==
==Genetic Resources==
Line 201: Line 291:
*  
*  
****************************************************************************************** -->{{Gene_resources_help}}
****************************************************************************************** -->{{Gene_resources_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="B46aa080417942"  class=" tableEdit Gene_resource_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
!|Resource!!Resource Type!!Source!!Notes/Reference
Line 219: Line 309:


Primer 2:  
Primer 2:  
|-
|
[[:Category:Kohara_Phage:21H11|21H11]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=647 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:5G7|5G7]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=648 Genobase]
|
PMID:3038334
|-
|
[[:Category:Kohara_Phage:9B1|9B1]]
|
Kohara Phage
|
[http://ecoli.aist-nara.ac.jp/GB6/kohara_info.jsp?fword=649 Genobase]
|
PMID:3038334


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.B46aa080417942&page=18833&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table] || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.B46aa080417942&page=18833&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table]</span> || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.B46aa080417942-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.B46aa080417942-->
Line 238: Line 355:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{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="F46aa0804b9ffc"  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=EG12178 EcoCyc:EG12178]
EcoCyc:EG12178
|
|
''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=EB2095 EchoBASE:EB2095]
EcoGene:EG12178
|
|
''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=b4136 EcoliGenExpDB:b4136]
RegulonDB:ECK120002071
|
|
''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=C5218 ECOL199310CYC:C5218]
[http://www.ncbi.nlm.nih.gov/gene?term=948649 GeneID:948649]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG12178 EcoGene:EG12178]
EchoBASE:EB2095
|
|
''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=DSBD ECOO157CYC:DSBD]
ASAP:ABE-0013539
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-  
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/34213 CGSC:34213]
|
|-
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0013539&formSubmitReturn=1 ASAP:ABE-0013539]
|


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.F46aa0804b9ffc&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.F46aa0804b9ffc&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.F46aa0804b9ffc-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.F46aa0804b9ffc-->
Line 316: Line 419:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|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="R46a720fc2284b"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.R46a720fc2284b&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18833.R46a720fc2284b&page=18833&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.R46a720fc2284b-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.18833.R46a720fc2284b-->
Line 338: Line 441:
[[Category:Genes in the ASKA clone collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:dsb genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:dsb genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:dip genes]]
[[Category:Gene_List:BW2952]]

Latest revision as of 20:51, 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

dsbD

Mnemonic

Disulfide bond

Synonyms

dipZ, ECK4130, b4136, JW5734, cutA2, cycZ, htrI, dsbD[1][2], htrI

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

94 minutes, 94 minutes 

MG1655: 4363065..4361368
<gbrowseImage> name=NC_000913:4361368..4363065 source=MG1655 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4369720..4368023
<gbrowseImage> name=NC_007779:4368023..4369720 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4463427..4461730
<gbrowseImage> name=NC_010473:4461730..4463427 source=DH10B preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4343763..4342066
<gbrowseImage> name=NC_012967:4342066..4343763 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4300103..4301800
<gbrowseImage> name=NC_012759:4300103..4301800 source=BW2952 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

ΔdipZ762::kan

PMID:16738554[3]

CGSC:100610

dipZ4::Cm

PMID:8917542[4] PMID:9352906[5]

CGSC:65873

ΔdsbD

PMID:9335267[6], PMID:10545108[7]

This strain contains an internal in-frame deletion of 536 codons of the dsbD gene. We replaced the deleted DNA sequences by an EcoRI site,

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

Plasmid clone

Shigen

PMID:16769691[8]

Status:

Primer 1:

Primer 2:

21H11

Kohara Phage

Genobase

PMID:3038334[9]

5G7

Kohara Phage

Genobase

PMID:3038334[9]

9B1

Kohara Phage

Genobase

PMID:3038334[9]

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:EG12178

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12178

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002071

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948649

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2095

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013539

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. ↑ 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. ↑ Rietsch, A et al. (1996) An in vivo pathway for disulfide bond isomerization in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 93 13048-53 PubMed
  5. ↑ Rietsch, A et al. (1997) Reduction of the periplasmic disulfide bond isomerase, DsbC, occurs by passage of electrons from cytoplasmic thioredoxin. J. Bacteriol. 179 6602-8 PubMed
  6. ↑ Link, AJ et al. (1997) Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J. Bacteriol. 179 6228-37 PubMed
  7. ↑ Stewart, EJ et al. (1999) Six conserved cysteines of the membrane protein DsbD are required for the transfer of electrons from the cytoplasm to the periplasm of Escherichia coli. EMBO J. 18 5963-71 PubMed
  8. ↑ 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
  9. ↑ 9.0 9.1 9.2 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=dipZ:Gene&oldid=1480586"