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Escherichia coli K-12 substr. MG1655 RNA: SibB small RNA



Gene: sibB Accession Numbers: G0-8885 (EcoCyc), b4437, ECK2069

Synonyms: QUAD1b, tpe60, ryeD

Superclasses: a regulatory RNA

Regulation Summary Diagram: ?

Summary:
The SibB small RNA was first detected during a comparative genomics screen for sequence conservation [Wassarman01]. The yegL-yegM intergenic region was initially shown to contain two copies of a repeat sequence element (initially termed QUAD1 and later renamed SIB) that occurs five times in the E. coli K-12 genome [Rudd99, Fozo08]. Many sequence regions conserved between the SIB elements are predicted to form stem-loop structures [Fozo08].

Two RNA products arising from sibB have been detected [Wassarman01, Fozo08]; the shorter RNA product may be derived by processing of the longer transcript [Fozo08]. A small open reading frame encoding the predicted toxic peptide IbsB is located on the opposite strand [Fozo08].

SibB is expressed at varying levels throughout growth; the RNA level is generally higher in minimal medium than in rich medium [Wassarman01, Fozo08].

Deletion of sibB has no detectable effect on cell growth. However, in a sibB deletion strain, expression of SibB from a plasmid must be highly induced to yield viable cells; this appears to be due to overexpression of the toxic peptide IbsB [Fozo08].

Ryx: "RNA of unknown function at X position (10 minute) in the genome" [Wassarman01]

SibA: "short, intergenic, abundant sequence" [Fozo08]

Reviews: [Gottesman01, Hershberg03]

Map Position: [2,151,670 -> 2,151,805] (46.38 centisomes)
Length: 136 bp

Unification Links: ASAP:ABE-0047257 , EchoBASE:EB4521 , EcoGene:EG31152 , EcoliWiki:b4437 , PortEco:sibB , RegulonDB:G0-8885

GO Terms:

Biological Process: GO:0035194 - posttranscriptional gene silencing by RNA Inferred from experiment [Fozo08]

MultiFun Terms: information transfer RNA related antisense RNA


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
Ingrid Keseler on Wed Aug 27, 2008:
Gene start and end positions corrected based on [Fozo08 ].
Ingrid Keseler on Thu May 31, 2007:
Gene position corrected based on information provided by Gisela Storz.
Suzanne Paley on Thu Oct 21, 2004:
Gene boundaries added from U00096.2 release of genome

Credits:
Last-Curated ? 27-Aug-2008 by Keseler I , SRI International


References

Fozo08: Fozo EM, Kawano M, Fontaine F, Kaya Y, Mendieta KS, Jones KL, Ocampo A, Rudd KE, Storz G (2008). "Repression of small toxic protein synthesis by the Sib and OhsC small RNAs." Mol Microbiol 70(5):1076-93. PMID: 18710431

Gottesman01: Gottesman S, Storz G, Rosenow C, Majdalani N, Repoila F, Wassarman KM (2001). "Small RNA regulators of translation: mechanisms of action and approaches for identifying new small RNAs." Cold Spring Harb Symp Quant Biol 66;353-62. PMID: 12762038

Hershberg03: Hershberg R, Altuvia S, Margalit H (2003). "A survey of small RNA-encoding genes in Escherichia coli." Nucleic Acids Res 31(7);1813-20. PMID: 12654996

Rudd99: Rudd KE (1999). "Novel intergenic repeats of Escherichia coli K-12." Res Microbiol 150(9-10);653-64. PMID: 10673004

Wassarman01: Wassarman KM, Repoila F, Rosenow C, Storz G, Gottesman S (2001). "Identification of novel small RNAs using comparative genomics and microarrays." Genes Dev 15(13);1637-51. PMID: 11445539


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Wed Nov 26, 2014, biocyc13.