RegulonDB RegulonDB 10.8: Gene Form
   

omrB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

galR omrA omrB GalS GalR OmpR OmpR anti-anti-terminator anti-terminator terminator anti-anti-terminator anti-terminator terminator TSS_3139 TSS_3139 galRp galRp omrBp omrBp omrAp omrAp

Gene      
Name: omrB    Texpresso search in the literature
Synonym(s): ECK2834, G0-8882, PAIR2b, b4445, rygB, t59
Genome position(nucleotides): 2976304 <-- 2976385 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
47.56
External database links:  
ASAP:
ABE-0047265
ECHOBASE:
EB4531
PortEco:
omrB
COLOMBOS: omrB


Product      
Name: OmrB
Synonym(s): PAIR2, PAIR2b, RygB, T59, rygB, small regulatory RNA OmrB, sraE, t59
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.4 - RNA degradation
  2 - information transfer --> 2.2 - RNA related --> 2.2.7 - antisense RNA
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
GO:0003729 - mRNA binding
biological_process GO:0040033 - negative regulation of translation, ncRNA-mediated
Note(s): Note(s): ...[more].
Evidence: [IDA] Inferred from direct assay
[IMP] Inferred from mutant phenotype
Reference(s): [1] Guillier M., et al., 2006
[2] Guillier M., et al., 2008
[3] Vogel J., et al., 2003
External database links:  
ECOCYC:
RYGB-RNA
ECOLIWIKI:
b4445


Operon      
Name: omrB         
Operon arrangement:
Transcription unit        Promoter
omrB


Transcriptional Regulation      
Display Regulation             
Activated by: OmpR


RNA cis-regulatory element    
Attenuation: Transcriptional


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_3139 2977006 forward nd [RS-EPT-CBR] [4]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates



Reference(s)    

 [1] Guillier M., Gottesman S., 2006, Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs., Mol Microbiol 59(1):231-47

 [2] Guillier M., Gottesman S., 2008, The 5' end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulator., Nucleic Acids Res 36(21):6781-94

 [3] Vogel J., Bartels V., Tang TH., Churakov G., Slagter-Jager JG., Huttenhofer A., Wagner EG., 2003, RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria., Nucleic Acids Res 31(22):6435-43

 [4] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.


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