nfrB:Expression: Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
Data loaded by TableEdit_Loader.
Edited by EditTablesByTemplate.php maintenance script
 
(4 intermediate revisions by the same user not shown)
Line 36: Line 36:
*  
*  
****************************************************************************************** -->{{Help Cellular levels}}
****************************************************************************************** -->{{Help Cellular levels}}
{|   id="V49c031f076c4d"  class=" tableEdit MoleculesPerCellTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="V49c031f076c4d"  class=" tableEdit MoleculesPerCellTable"   
|- align='left' bgcolor='#CCCCFF'
|- align='left' bgcolor='#CCCCFF'
!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
Line 51: Line 51:
*Medium:   
*Medium:   
*Temperature (°C):   
*Temperature (°C):   
*Growth Rate(min):  *
*Doubling time (min): Growth Rate(min):  *
*other:  *
*Growth phase: other:  *
|
|


Line 71: Line 71:
*Medium:   
*Medium:   
*Temperature (°C):   
*Temperature (°C):   
*Growth Rate(min):  *
*Doubling time (min): Growth Rate(min):  *
*other:  *
*Growth phase: other:  *
|
|


Line 79: Line 79:
|
|
PMID:20671182  
PMID:20671182  
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
6<sup>a</sup>
|
molecules/cell/generation
|
*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
Low confidence in the sequencing data set.
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
1<sup>a</sup>
|
molecules/cell/generation
|
*Medium: MOPS Minimal 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
Low confidence in the sequencing data set.
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
0<sup>a</sup>
|
molecules/cell/generation
|
*Medium: MOPS Complete without Methionine 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
Low confidence in the sequencing data set.
|
PMID: 24766808


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 99: Line 166:
*  
*  
****************************************************************************************** -->{{expression_transcription_help}}
****************************************************************************************** -->{{expression_transcription_help}}
{|   id="X46ab405e5da8e"  class=" tableEdit Expression_operons_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="X46ab405e5da8e"  class=" tableEdit Expression_operons_table"   
|- {{table heading style}}
|- {{table heading style}}
!|Transcription unit(s)
!|Transcription unit(s)
Line 109: Line 176:
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.33947.X46ab405e5da8e&page=33947&pagename={{FULLPAGENAMEE}}&type=&template=Expression_operons_table edit table]</span>
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.33947.X46ab405e5da8e&page=33947&pagename={{FULLPAGENAMEE}}&type=&template=Expression_operons_table edit table]</span>
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.33947.X46ab405e5da8e-->||{{RegulonDBfig|ECK120001678.jpg|NFRB}}
<!--box uid=421aa90e079fa326b6494f812ad13e79.33947.X46ab405e5da8e-->||{{RegulonDBfig|ECK120001678.jpg|ECK120001678}}
|}
|}


Line 120: Line 187:
<protect><gbrowseImage>
<protect><gbrowseImage>
name=NC_000913:592381..592421
name=NC_000913:592381..592421
source=ecoli
source=MG1655
flip=1
flip=1
type=Gene+DNA_+Protein
type=Gene+DNA_+Protein
Line 148: Line 215:
*  
*  
****************************************************************************************** -->{{Expression_allele_table_help}}
****************************************************************************************** -->{{Expression_allele_table_help}}
{|   id="H46ab405f1ffca"  class=" tableEdit Expression_allele_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46ab405f1ffca"  class=" tableEdit Expression_allele_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Allele Name!!Mutation!!Phenotype!!Reference
!|Allele Name!!Mutation!!Phenotype!!Reference
Line 166: Line 233:
*  
*  
****************************************************************************************** -->{{Expression_studies_table_help}}
****************************************************************************************** -->{{Expression_studies_table_help}}
{|   id="R46ab405f860e4"  class=" tableEdit Expression_studies_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="R46ab405f860e4"  class=" tableEdit Expression_studies_table"   
|- {{table heading style}}
|- {{table heading style}}
!|Type!!Reference!!Notes
!|Type!!Reference!!Notes
Line 178: Line 245:
|-  
|-  
|
|
microarray  
microarray
|
|
[http://genexpdb.ou.edu/index.php?query=b0569 GenExpDB:b0569] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://genexpdb.ou.edu/index.php?query=b0569 GenExpDB:b0569] ([[EcoliGenExpDB|EcoliWiki Page]])  
Line 198: Line 265:
*  
*  
****************************************************************************************** -->{{Expression_resource_table_help}}
****************************************************************************************** -->{{Expression_resource_table_help}}
{|   id="G46ab405fece45"  class=" tableEdit Expression_resource_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="G46ab405fece45"  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
Line 231: Line 298:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|   id="R46ab4060619ce"  class=" tableEdit Gene_accessions_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="R46ab4060619ce"  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=EG11739 EcoCyc:EG11739]
EcoCyc:EG11739
|
|
''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=EB1690 EchoBASE:EB1690]
EchoBASE:EB1690
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
Line 257: Line 324:
|-  
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[EcoGene]]
|
EcoGene:EG11739
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120001678
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG11739 EcoGene:EG11739]
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
|-
|
|
[[ASAP]]
|
ASAP:ABE-0001942
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 281: Line 362:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|   id="Z46a7abe75c19b"  class=" tableEdit Links_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Z46a7abe75c19b"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments

Latest revision as of 19:19, 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

Ecoli K-12

2.786+/-0.049

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182[1]

mRNA

Ecoli K-12

0.006481895

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

6a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID:24766808[2]

Protein

E. coli K-12 MG1655

1a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID:24766808[2]

Protein

E. coli K-12 MG1655

0a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID:24766808[2]

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)

nfrBA

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

[back to top]


<gbrowseImage> name=NC_000913:592381..592421 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
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:b0569 (EcoliWiki Page)

NCBI GEO profiles for nfrB

microarray

GenExpDB:b0569 (EcoliWiki Page)

Summary of data for nfrB 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 (592309..592603) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ14; Well:A2[3]

edit table

<protect>

Notes

Accessions Related to nfrB Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG11739

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1690

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0569

EcoGene

EcoGene:EG11739

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001678

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001942

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 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

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=nfrB:Expression&oldid=1500390"