Difference between revisions of "RatA"

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(New page: * '''Description:''' write here <br/><br/> {| align="right" border="1" cellpadding="2" |- |style="background:#ABCDEF;" align="center"|'''Gene name''' |''genE'' |- |style="background:#ABC...)
 
 
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* '''Description:''' write here <br/><br/>
+
* '''Description:''' regulatory RNA,  [[small RNAs|ncRNA]], antisense for ''[[txpA]]'' <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''genE''
+
|''ratA''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || write here
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || write here
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|style="background:#ABCDEF;" align="center"| '''Product''' || ''[[txpA]]'' [[small RNAs|antisense RNA]]
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || write here
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|style="background:#ABCDEF;" align="center"|'''Function''' || control of ''[[txpA]]'' expression
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || xx,x kDa, y.yy
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|style="background:#ABCDEF;" align="center"| '''Gene length''' || 222 bp
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || aaa bp, bbb amino acids
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[txpA]]'', ''[[bsrH]]''
−
|-
 
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[genA]]'', ''[[genB]]''
 
 
|-
 
|-
 
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
 
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''
 
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:genE_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:genE_context.gif]]
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=S976_2678362_2678577_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ratA_expression.png|500px]]
 
|-
 
|-
 
|}
 
|}
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<br/><br/>
 
<br/><br/>
  
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[toxins, antitoxins and immunity against toxins]]}},
 +
{{SubtiWiki category|[[Skin element]]}},
 +
{{SubtiWiki category|[[ncRNA]]}}
 +
 +
= This gene is a member of the following [[regulons]] =
 +
 +
=The [[ratA regulon]]: ''[[txpA]]'' =
 
=The gene=
 
=The gene=
  
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates (CDS):'''
+
* '''Locus tag:'''
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=?&redirect=T ?]
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=?&redirect=T ?]
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rocG.html]
+
* '''DBTBS entry:''' no entry
  
 
* '''SubtiList entry:'''
 
* '''SubtiList entry:'''
−
 
−
=== Additional information===
 
−
 
−
 
−
=The protein=
 
−
 
−
=== Basic information/ Evolution ===
 
−
 
−
* '''Catalyzed reaction/ biological activity:'''
 
−
 
−
* '''Protein family:'''
 
−
 
−
* '''Paralogous protein(s):'''
 
−
 
−
=== Extended information on the protein ===
 
−
 
−
* '''Kinetic information:'''
 
−
 
−
* '''Domains:'''
 
−
 
−
* '''Modification:'''
 
−
 
−
* '''Cofactor(s):'''
 
−
 
−
* '''Effectors of protein activity:'''
 
−
 
−
* '''Interactions:'''
 
−
 
−
* '''Localization:'''
 
−
 
−
=== Database entries ===
 
  
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:'''
+
=== Additional information===
−
 
 
−
* '''KEGG entry:'''
 
  
−
* '''E.C. number:'''
+
=The RNA=
  
−
=== Additional information===
+
binds  the ''[[txpA]]'' mRNA and triggers its degradation [http://www.ncbi.nlm.nih.gov/sites/entrez/16166525 PubMed]
  
 
=Expression and regulation=
 
=Expression and regulation=
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* '''Operon:'''  
 
* '''Operon:'''  
  
−
* '''Sigma factor:'''  
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* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
 +
** the ''[[txpA]]'' mRNA-''[[RatA]]'' RNA duplex is degraded by [[rnc|RNase III]] {{PubMed|23300471}}
  
 
=Biological materials =
 
=Biological materials =
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Richard Losick]], Harvard University, Cambridge, USA [http://www.mcb.harvard.edu/Losick/ Homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
  
 
=References=
 
=References=
 +
==Reviews==
 +
<pubmed> 23300472 </pubmed>
 +
 +
==Original publications==
 +
<pubmed>16166525, 23300471</pubmed>
  
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
[[Category:small RNA]]

Latest revision as of 13:06, 28 January 2017

  • Description: regulatory RNA, ncRNA, antisense for txpA

Gene name ratA
Synonyms
Essential no
Product txpA antisense RNA
Function control of txpA expression
Gene length 222 bp
Immediate neighbours txpA, bsrH
Gene sequence (+200bp)
Genetic context
File:GenE context.gif
Expression at a glance   PubMed
RatA expression.png



Categories containing this gene/protein

toxins, antitoxins and immunity against toxins, Skin element, ncRNA

This gene is a member of the following regulons

The ratA regulon: txpA

The gene

Basic information

  • Locus tag:

Phenotypes of a mutant

Database entries

  • BsubCyc: ?
  • BsubCyc: ?
  • DBTBS entry: no entry
  • SubtiList entry:
  • Structure:

Additional information

The RNA

binds the txpA mRNA and triggers its degradation PubMed

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Richard Losick, Harvard University, Cambridge, USA Homepage

Your additional remarks

References

Reviews

Fabian M Commichau, Jörg Stülke
A mystery unraveled: essentiality of RNase III in Bacillus subtilis is caused by resident prophages.
PLoS Genet: 2012, 8(12);e1003199
[PubMed:23300472] [WorldCat.org] [DOI] (I p)


Original publications

Sylvain Durand, Laetitia Gilet, Ciarán Condon
The essential function of B. subtilis RNase III is to silence foreign toxin genes.
PLoS Genet: 2012, 8(12);e1003181
[PubMed:23300471] [WorldCat.org] [DOI] (I p)

Jessica M Silvaggi, John B Perkins, Richard Losick
Small untranslated RNA antitoxin in Bacillus subtilis.
J Bacteriol: 2005, 187(19);6641-50
[PubMed:16166525] [WorldCat.org] [DOI] (P p)

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