RegulonDB RegulonDB 10.8: Gene Form
   

sdsR gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

pphA yebY ryeA sdsR anti-anti-terminator anti-terminator terminator anti-anti-terminator anti-terminator terminator pphAp pphAp sdsRp sdsRp ryeAp ryeAp

Gene      
Name: sdsR    Texpresso search in the literature
Synonym(s): ECK1839, G0-8883, b4433, ryeB, tkpe79
Genome position(nucleotides): 1923104 <-- 1923207 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.0
External database links:  
ASAP:
 ABE-0047253
ECHOBASE:
 EB4515
PortEco:
 ryeB
COLOMBOS: sdsR


Product      
Name: RyeB
Synonym(s): SdsR, Tkpe79, sdsR, small regulatory RNA SdsR, tpke79
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
GO:0048027 - mRNA 5'-UTR binding
biological_process GO:0061157 - mRNA destabilization
GO:0040033 - negative regulation of translation, ncRNA-mediated
GO:1900191 - negative regulation of single-species biofilm formation
GO:1902201 - negative regulation of bacterial-type flagellum-dependent cell motility
Note(s): Note(s): ...[more].
Evidence: [IDA] Inferred from direct assay
[IMP] Inferred from mutant phenotype
Reference(s): [1] Bak G., et al., 2015
[2] Kim T., et al., 2015
[3] Rivas E., et al., 2001
[4] Sridhar J., et al., 2007
[5] Vogel J., et al., 2003
External database links:  
ECOCYC:
 RYEB-RNA
ECOLIWIKI:
 b4433


Operon      
Name: sdsR-pphA         
Operon arrangement:
Transcription unit        Promoter
sdsR
sdsR-pphA
sdsR-pphA


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


Reference(s)    

 [1] Bak G., Lee J., Suk S., Kim D., Young Lee J., Kim KS., Choi BS., Lee Y., 2015, Identification of novel sRNAs involved in biofilm formation, motility, and fimbriae formation in Escherichia coli., Sci Rep 5:15287

 [2] Kim T., Bak G., Lee J., Kim KS., 2015, Systematic analysis of the role of bacterial Hfq-interacting sRNAs in the response to antibiotics., J Antimicrob Chemother 70(6):1659-68

 [3] Rivas E., Klein RJ., Jones TA., Eddy SR., 2001, Computational identification of noncoding RNAs in E. coli by comparative genomics., Curr Biol 11(17):1369-73

 [4] Sridhar J., Rafi ZA., 2007, Identification of novel genomic islands associated with small RNAs., In Silico Biol 7(6):601-11

 [5] 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

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