ampD:Expression: Difference between revisions

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==Overview==
===Overview===
{{Expression_overview_placeholder}}
{{Expression_overview_placeholder}}
==Cellular Levels==
{{BacktoTop}}
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!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
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Protein
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''E. coli'' K-12 MG1655
|
269
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molecules/cell/generation
|
*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
|-
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Protein
|
''E. coli'' K-12 MG1655
|
202
|
molecules/cell/generation
|
*Medium: MOPS Minimal 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
206
|
molecules/cell/generation
|
*Medium: MOPS Complete without Methionine 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
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===Notes===
==Transcription and Transcriptional Regulation==
==Transcription and Transcriptional Regulation==
{{BacktoTop}}
{{BacktoTop}}
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[[:Category:Txn_unit:ampDE|ampDE]]  
[[:Category:Txn_unit:ampDE|ampDE]]  
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<!--Transcription_notes--></protect>
===Notes===
===Notes===
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==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
{{BacktoTop}}
{{BacktoTop}}
<protect>{{GBrowseFigureByCoord|118713|118753|ecoli|MG1655|Genes_unlabeled+DNA_unlabeled|400|{{Nterm_closeup}} }}
<protect><gbrowseImage>
name=NC_000913:118713..118753
source=MG1655
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
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===Notes===
===Notes===
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!Allele Name!!Mutation!!Phenotype!!Reference
!|Allele Name!!Mutation!!Phenotype!!Reference
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<big>'''Expression Studies'''</big>
<big>'''Expression Studies'''</big>
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!Type!!Reference!!Notes
!|Type!!Reference!!Notes
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|-
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microarray
|
[[geoprofiles:b0110|GEO Profiles:b0110]] ([[Gene_Expression_Omnibus_%28GEO%29|EcoliWiki Page]])
|
NCBI GEO profiles for ''ampD''
|-  
|
|
microarray  
microarray
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b0110 EcoliGenExpDB:b0110] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://genexpdb.ou.edu/index.php?query=b0110 GenExpDB:b0110] ([[EcoliGenExpDB|EcoliWiki Page]])  
|
|
Summary of data for ampD from multiple microarray studies   
Summary of data for ampD from multiple microarray studies   
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<big>'''Expression Resources'''</big>
<big>'''Expression Resources'''</big>
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|
GFP Fusion
|
Intergenic region (118571..118804) 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-AZ18; Well:B2<ref name="PMID: 16862137" />
 
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<protect><!--Expression_experimental_notes--></protect>
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===Notes===
===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
|
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10041 EcoCyc:EG10041] 
EcoCyc:EG10041
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EchoBASE]]
|
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[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0039 EchoBASE:EB0039] 
EchoBASE:EB0039
|
|
''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=b0110 EcoliGenExpDB:b0110]
[http://chase.ou.edu/macro/searchlink.php?bnum=b0110 EcoliGenExpDB:b0110]
|
|
   
   
|-
|-
|
[[EcoGene]]
|
EcoGene:EG10041
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120000037
|
''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=EG10041 EcoGene:EG10041] 
ASAP:ABE-0000380
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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<protect><!--Accessions_notes--></protect>
<protect><!--Accessions_notes--></protect>
===Notes===
===Notes===
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<noinclude>
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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Txn_unit:ampDE]]
[[Category:Txn_unit:ampDE]]

Latest revision as of 19:53, 21 July 2015

{{#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)

Protein

E. coli K-12 MG1655

269

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[1]

Protein

E. coli K-12 MG1655

202

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[1]

Protein

E. coli K-12 MG1655

206

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[1]

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)

ampDE

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.

Translation and Regulation of Translation

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<gbrowseImage> name=NC_000913:118713..118753 source=MG1655 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
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:b0110 (EcoliWiki Page)

NCBI GEO profiles for ampD

microarray

GenExpDB:b0110 (EcoliWiki Page)

Summary of data for ampD 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 (118571..118804) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ18; Well:B2[2]

edit table

<protect>

Notes

Accessions Related to ampD Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG10041

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0039

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0110

EcoGene

EcoGene:EG10041

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000037

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000380

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

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References

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

  1. ↑ 1.0 1.1 1.2 Li, GW et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157 624-35 PubMed
  2. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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