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

Gene: isrC Accession Numbers: G0-8905 (EcoCyc), b4435, ECK1992

Synonyms: IS102

Superclasses: Misc-RNAs

Regulation Summary Diagram: ?

Regulation summary diagram for isrC

isrC was first identified in a screen for potential small RNA genes [Chen02]. It is not clear whether IsrC simply represents the attenuated UTR of flu or whether it has an independent function [Wallecha14].

IsrC is transcribed from the region between yeeP and flu [Chen02]. Expression of isrC is repressed in the presence of PhoP and independent of the concentration of Mg2+ [Raghavan11a].

A predicted secondary structure at the 3' end of isrC functions as a rho-independent terminator in vitro. Antitermination is regulated in vivo; initiation of translation at the in-frame ATG codon within isrC enhances expression of flu [Wallecha14].

Review: [Hershberg03]

Map Position: [2,069,341 -> 2,069,535] (44.6 centisomes, 161°)
Length: 195 bp

Genetic Regulation Schematic: ?

Genetic regulation schematic for isrC

Unification Links: ASAP:ABE-0047255 , EchoBASE:EB4519 , EcoGene:EG31150 , EcoliWiki:b4435 , PortEco:isrC , RegulonDB:G0-8905

MultiFun Terms: information transfer RNA related

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram


Ingrid Keseler on Mon Aug 4, 2014:
5' and 3' end positions adjusted according to [Wallecha14 ].

Last-Curated ? 04-Aug-2014 by Keseler I , SRI International


Chen02: Chen S, Lesnik EA, Hall TA, Sampath R, Griffey RH, Ecker DJ, Blyn LB (2002). "A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome." Biosystems 65(2-3);157-77. PMID: 12069726

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

Raghavan11a: Raghavan R, Groisman EA, Ochman H (2011). "Genome-wide detection of novel regulatory RNAs in E. coli." Genome Res 21(9);1487-97. PMID: 21665928

Wallecha14: Wallecha A, Oreh H, van der Woude MW, deHaseth PL (2014). "Control of Gene Expression at a Bacterial Leader RNA, the agn43 Gene Encoding Outer Membrane Protein Ag43 of Escherichia coli." J Bacteriol 196(15);2728-35. PMID: 24837285

Other References Related to Gene Regulation

Chauhan13: Chauhan A, Sakamoto C, Ghigo JM, Beloin C (2013). "Did I pick the right colony? Pitfalls in the study of regulation of the phase variable antigen 43 adhesin." PLoS One 8(9);e73568. PMID: 24039985

Correnti02: Correnti J, Munster V, Chan T, Woude M (2002). "Dam-dependent phase variation of Ag43 in Escherichia coli is altered in a seqA mutant." Mol Microbiol 44(2);521-32. PMID: 11972788

Gabig02: Gabig M, Herman-Antosiewicz A, Kwiatkowska M, Los M, Thomas MS, Wegrzyn G (2002). "The cell surface protein Ag43 facilitates phage infection of Escherichia coli in the presence of bile salts and carbohydrates." Microbiology 148(Pt 5);1533-42. PMID: 11988528

Gonzalez06: Gonzalez Barrios AF, Zuo R, Hashimoto Y, Yang L, Bentley WE, Wood TK (2006). "Autoinducer 2 Controls Biofilm Formation in Escherichia coli through a Novel Motility Quorum-Sensing Regulator (MqsR, B3022)." J Bacteriol 188(1);305-16. PMID: 16352847

Haagmans00: Haagmans W, van der Woude M (2000). "Phase variation of Ag43 in Escherichia coli: Dam-dependent methylation abrogates OxyR binding and OxyR-mediated repression of transcription." Mol Microbiol 35(4);877-87. PMID: 10692164

Henderson99: Henderson IR, Owen P (1999). "The major phase-variable outer membrane protein of Escherichia coli structurally resembles the immunoglobulin A1 protease class of exported protein and is regulated by a novel mechanism involving Dam and oxyR." J Bacteriol 181(7);2132-41. PMID: 10094691

Tani02: Tani TH, Khodursky A, Blumenthal RM, Brown PO, Matthews RG (2002). "Adaptation to famine: a family of stationary-phase genes revealed by microarray analysis." Proc Natl Acad Sci U S A 99(21);13471-6. PMID: 12374860

Waldron02: Waldron DE, Owen P, Dorman CJ (2002). "Competitive interaction of the OxyR DNA-binding protein and the Dam methylase at the antigen 43 gene regulatory region in Escherichia coli." Mol Microbiol 44(2);509-20. PMID: 11972787

Wallecha02: Wallecha A, Munster V, Correnti J, Chan T, van der Woude M (2002). "Dam- and OxyR-dependent phase variation of agn43: essential elements and evidence for a new role of DNA methylation." J Bacteriol 184(12);3338-47. PMID: 12029051

Wallecha03: Wallecha A, Correnti J, Munster V, van der Woude M (2003). "Phase variation of Ag43 is independent of the oxidation state of OxyR." J Bacteriol 185(7);2203-9. PMID: 12644490

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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 19.0 on Fri Oct 9, 2015, biocyc13.