dsrA:Expression: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
imported>WikiEntryBot
Automated import of articles
touch
 
(24 intermediate revisions by 4 users not shown)
Line 22: Line 22:
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
|}
[[Category:Txn_unit:dsrA]]
</noinclude>
</noinclude>
==Overview==
===Overview===
{{Expression_overview_placeholder}}
{{Expression_overview_placeholder}}
==Cellular Levels==
{{BacktoTop}}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.37609.Y49c02314f39e2-->
<!--
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Help Cellular levels}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Y49c02314f39e2"  class=" tableEdit MoleculesPerCellTable" 
|- align='left' bgcolor='#CCCCFF'
!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=bc145ea147f7e36caf09c1bfeed4ee9d.37609.Y49c02314f39e2&page=37609&pagename={{FULLPAGENAMEE}}&type=0&template=MoleculesPerCellTable edit table]</span> || || || || || || ||
|}
<!--box uid=bc145ea147f7e36caf09c1bfeed4ee9d.37609.Y49c02314f39e2-->
===Notes===
==Transcription and Transcriptional Regulation==
==Transcription and Transcriptional Regulation==
{{BacktoTop}}
{{BacktoTop}}
Line 32: Line 53:
|-
|-
|<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc0a04fe-->
|<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc0a04fe-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='194693'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{expression_transcription_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="L46ab5cc0a04fe"  class=" tableEdit Expression_operons_table" 
|- {{table heading style}}
|- {{table heading style}}
!Transcription unit(s)
!|Transcription unit(s)
|-
|-  
|
|
[[:Category:Txn_unit:dsrA|dsrA]]  
[[:Category:Txn_unit:dsrA|dsrA]]  
|-class='sortbottom'
 
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc0a04fe&page=37609&pagename={{FULLPAGENAMEE}} edit table]
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc0a04fe&page=37609&pagename={{FULLPAGENAMEE}}&type=&template=Expression_operons_table edit table]</span>
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc0a04fe-->||{{RegulonDBfig|ECK120003633.jpg|DSRA}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc0a04fe-->||{{RegulonDBfig|ECK120003633.jpg|ECK120003633}}
|}
|}
{{expression_transcription_help}}
 
<!--Transcription_notes--></protect>
<!--Transcription_notes--></protect>
===Notes===
===Notes===
{{Expression_transcription_placeholder}}
{{Expression_transcription_placeholder}}
dsrAp is regulated by temperature and operates efficiently at 25 C but poorly at 42 C. <ref name='PMID:14594834'/>


==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
{{BacktoTop}}
{{BacktoTop}}
<protect>{{GBrowseFigureByCoord|2023317|2023357|ecoli|MG1655|Genes_unlabeled+DNA_unlabeled+flip|400|{{Nterm_closeup}} }}
<protect><gbrowseImage>
name=NC_000913:2023317..2023357
source=MG1655
flip=1
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
{{Nterm_closeup}}
 
<!--Translation_notes--></protect>
<!--Translation_notes--></protect>
===Notes===
===Notes===
Line 67: Line 105:
<big>'''Mutations Affecting Expression'''</big>
<big>'''Mutations Affecting Expression'''</big>
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.S46ab5cc170c2a-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.S46ab5cc170c2a-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='194694'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Expression_allele_table_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="S46ab5cc170c2a"  class=" tableEdit Expression_allele_table" 
|- {{table_heading_style}}
|- {{table_heading_style}}
!Allele Name!!Mutation!!Phenotype!!Reference
!|Allele Name!!Mutation!!Phenotype!!Reference
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.37609.S46ab5cc170c2a&page=37609&pagename={{FULLPAGENAMEE}} edit table] || || ||
|
dsrAp construct Δ37
|
G to A at -8 relative to the transcription start site
|
temperature regulation abolished
|
PMID:14594834
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.37609.S46ab5cc170c2a&page=37609&pagename={{FULLPAGENAMEE}}&type=&template=Expression_allele_table edit table]</span> || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.S46ab5cc170c2a-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.S46ab5cc170c2a-->
{{Expression_allele_table_help}}
 


<big>'''Expression Studies'''</big>
<big>'''Expression Studies'''</big>
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc1e27d7-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc1e27d7-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='194695'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Expression_studies_table_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="L46ab5cc1e27d7"  class=" tableEdit Expression_studies_table" 
|- {{table heading style}}
|- {{table heading style}}
!Type!!Reference!!Notes
!|Type!!Reference!!Notes
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc1e27d7&page=37609&pagename={{FULLPAGENAMEE}} edit table] || ||
|
microarray
|
[[geoprofiles:b1954|GEO Profiles:b1954]] ([[Gene_Expression_Omnibus_%28GEO%29|EcoliWiki Page]])
|
NCBI GEO profiles for ''dsrA''
|-
|
microarray
|
[http://genexpdb.ou.edu/index.php?query=b1954 GenExpDB:b1954] ([[EcoliGenExpDB|EcoliWiki Page]])
|
Summary of data for dsrA from multiple microarray studies 
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc1e27d7&page=37609&pagename={{FULLPAGENAMEE}}&type=&template=Expression_studies_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc1e27d7-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.L46ab5cc1e27d7-->
{{Expression_studies_table_help}}
 


<big>'''Expression Resources'''</big>
<big>'''Expression Resources'''</big>
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.H46ab5cc25e907-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.H46ab5cc25e907-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='194696'
******************************************************************************************
*
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
*
****************************************************************************************** -->{{Expression_resource_table_help}}
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46ab5cc25e907"  class=" tableEdit Expression_resource_table" 
|- {{table heading style}}
|- {{table heading style}}
!Resource Name!!Resource Type!!Description!!Source!!Notes
!|Resource Name!!Resource Type!!Description!!Source!!Notes
|-class='sortbottom'
|-
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.37609.H46ab5cc25e907&page=37609&pagename={{FULLPAGENAMEE}} edit table] || || || ||
|
 
|
GFP Fusion
|
Intergenic region (2023265..2023571) fused to <i>gfpmut2</i>.
|
[http://www.openbiosystems.com/GeneExpression/Non-Mammalian/Bacteria/EcoliPromoters/ OpenBioSystems][[Category:Genes in OpenBioSystems with Promoter Fusions]]
|
GFP fusion described in Zaslaver, <i>et al.</i><br />Plate:109-AZ19; Well:B4<ref name="PMID: 16862137" />
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.37609.H46ab5cc25e907&page=37609&pagename={{FULLPAGENAMEE}}&type=&template=Expression_resource_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.H46ab5cc25e907-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.H46ab5cc25e907-->
{{Expression_resource_table_help}}
 
<protect><!--Expression_experimental_notes--></protect>
<protect><!--Expression_experimental_notes--></protect>
===Notes===
===Notes===
Line 107: Line 197:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.G46ab5cc2d0155-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.G46ab5cc2d0155-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='194697'
******************************************************************************************
*
*  ** 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="G46ab5cc2d0155"  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=G7047 EcoCyc:G7047] 
EcoCyc:G7047
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB4281 EchoBASE:EB4281] 
EchoBASE:EB4281
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b1954 EcoliGenExpDB:b1954]
[http://chase.ou.edu/macro/searchlink.php?bnum=b1954 EcoliGenExpDB:b1954]
|
|
   
   
|-
|-
|
[[EcoGene]]
|
EcoGene:EG31118
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120003633
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[ASAP]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG31118 EcoGene:EG31118] 
ASAP:ABE-0006490
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-class='sortbottom'
 
|[{{SERVER}}/colipedia/index.php/Special:TableEdit?id=421aa90e079fa326b6494f812ad13e79.37609.G46ab5cc2d0155&page=37609&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.37609.G46ab5cc2d0155&page=37609&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.G46ab5cc2d0155-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.G46ab5cc2d0155-->
{{Expression_accessions_table_help}}
 
<protect><!--Accessions_notes--></protect>
<protect><!--Accessions_notes--></protect>
===Notes===
===Notes===
Line 151: Line 261:
{{BacktoTop}}
{{BacktoTop}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.C46ab5cc5789d7-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.C46ab5cc5789d7-->
<!--*** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. *** -->
<!--
{|class = 'sortable' {{Prettytable}} id='194698'
******************************************************************************************
*
*  ** 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="C46ab5cc5789d7"  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=421aa90e079fa326b6494f812ad13e79.37609.C46ab5cc5789d7&page=37609&pagename={{FULLPAGENAMEE}} edit table] || ||
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.37609.C46ab5cc5789d7&page=37609&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.C46ab5cc5789d7-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.37609.C46ab5cc5789d7-->
{{Links_help}}
 
<noinclude>
<noinclude>
==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
{{BacktoTop}}
[[Category:Txn_unit:dsrA]]

Latest revision as of 08:19, 27 May 2013

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Overview Transcription Translation Turnover Experimental Links References Suggestions

Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

[back to top]


See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)
edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

dsrA

edit table
Figure courtesy of RegulonDB


Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


dsrAp is regulated by temperature and operates efficiently at 25 C but poorly at 42 C. [1]

Translation and Regulation of Translation

[back to top]


<gbrowseImage> name=NC_000913:2023317..2023357 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.


Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

</protect>

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

[back to top]


Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference

dsrAp construct Δ37

G to A at -8 relative to the transcription start site

temperature regulation abolished

PMID:14594834[1]

edit table


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b1954 (EcoliWiki Page)

NCBI GEO profiles for dsrA

microarray

GenExpDB:b1954 (EcoliWiki Page)

Summary of data for dsrA from multiple microarray studies

edit table


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (2023265..2023571) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ19; Well:B4[2]

edit table

<protect>

Notes

Accessions Related to dsrA Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:G7047

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4281

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1954

EcoGene

EcoGene:EG31118

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003633

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006490

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

[back to top]



References

[back to top]


See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 Repoila, F & Gottesman, S (2003) Temperature sensing by the dsrA promoter. J. Bacteriol. 185 6609-14 PubMed
  2. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=dsrA:Expression&oldid=1386368"