barA:Expression: Difference between revisions

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*  
*  
****************************************************************************************** -->{{Help Cellular levels}}
****************************************************************************************** -->{{Help Cellular levels}}
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|- align='left' bgcolor='#CCCCFF'
|- align='left' bgcolor='#CCCCFF'
!|Molecule!!Organism or Strain!!Cellular level!!Units!!Medium!!Temperature °C!!Other (e.g. anaerobic)!!Growth rate!!Assay used!!Notes!!Reference(s)
!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
|-
|
Protein
|
Ecoli K-12
|
2.179+/-0.059
|
Molecules/cell
|
*Medium: 
*Temperature (°C): 
*Doubling time (min): Growth Rate(min):  *
*Growth phase: other:  *
|
 
|
Single Molecule Fluorescence
|
PMID:20671182
|-
|
mRNA
|
Ecoli K-12
|
0.011066763
|
Molecules/cell
|
*Medium: 
*Temperature (°C): 
*Doubling time (min): Growth Rate(min):  *
*Growth phase: other:  *
|
 
|
by RNA_Seq
|
PMID:20671182
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
141
|
molecules/cell/generation
|
*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
 
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
56
|
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
|
59
 
|
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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****************************************************************************************** -->{{expression_transcription_help}}
****************************************************************************************** -->{{expression_transcription_help}}
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!|Transcription unit(s)
!|Transcription unit(s)
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[[:Category:Txn_unit:barA|barA]]  
[[:Category:Txn_unit:barA|barA]]  


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==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
{{BacktoTop}}
{{BacktoTop}}
<protect>{{GBrowseFigureByCoord|2913059|2913099|ecoli|MG1655|Genes_unlabeled+DNA_unlabeled|400|{{Nterm_closeup}} }}
<protect><gbrowseImage>
name=NC_000913:2913059..2913099
source=MG1655
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
{{Nterm_closeup}}
 
<!--Translation_notes--></protect>
<!--Translation_notes--></protect>
===Notes===
===Notes===
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****************************************************************************************** -->{{Expression_allele_table_help}}
****************************************************************************************** -->{{Expression_allele_table_help}}
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!|Allele Name!!Mutation!!Phenotype!!Reference
!|Allele Name!!Mutation!!Phenotype!!Reference


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****************************************************************************************** -->{{Expression_studies_table_help}}
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!|Type!!Reference!!Notes
!|Type!!Reference!!Notes
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|-  
|-  
|
|
microarray  
microarray
|
|
[http://genexpdb.ou.edu/index.php?query=b2786 GenExpDB:b2786] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://genexpdb.ou.edu/index.php?query=b2786 GenExpDB:b2786] ([[EcoliGenExpDB|EcoliWiki Page]])  
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Summary of data for barA from multiple microarray studies   
Summary of data for barA from multiple microarray studies   


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****************************************************************************************** -->{{Expression_resource_table_help}}
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!|Resource Name!!Resource Type!!Description!!Source!!Notes
!|Resource Name!!Resource Type!!Description!!Source!!Notes
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GFP fusion described in Zaslaver, <i>et al.</i><br />Plate:109-AZ05; Well:H11<ref name="PMID: 16862137" />  
GFP fusion described in Zaslaver, <i>et al.</i><br />Plate:109-AZ05; Well:H11<ref name="PMID: 16862137" />  


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****************************************************************************************** -->{{Gene_accessions_help}}
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG11367 EcoCyc:EG11367]
EcoCyc:EG11367
|
|
''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=EB1341 EchoBASE:EB1341]
EchoBASE:EB1341
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
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[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EcoGene]]
|
EcoGene:EG11367
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120001335
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[ASAP]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG11367 EcoGene:EG11367]
ASAP:ABE-0009131
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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Latest revision as of 19:51, 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

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See Help:Cellular levels

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

Protein

Ecoli K-12

2.179+/-0.059

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182[1]

mRNA

Ecoli K-12

0.011066763

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182[1]

Protein

E. coli K-12 MG1655

141

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[2]

Protein

E. coli K-12 MG1655

56

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[2]

Protein

E. coli K-12 MG1655

59

molecules/cell/generation

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

Ribosome Profiling

PMID:24766808[2]

edit table

Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)

barA

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_000913:2913059..2913099 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

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

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2786 (EcoliWiki Page)

NCBI GEO profiles for barA

microarray

GenExpDB:b2786 (EcoliWiki Page)

Summary of data for barA 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 (2912930..2913082) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ05; Well:H11[3]

edit table

<protect>

Notes

Accessions Related to barA Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG11367

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1341

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2786

EcoGene

EcoGene:EG11367

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001335

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009131

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

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References

[back to top]


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

  1. ↑ 1.0 1.1 Taniguchi, Y et al. (2010) Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science 329 533-8 PubMed
  2. ↑ 2.0 2.1 2.2 Li, GW et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157 624-35 PubMed
  3. ↑ 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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