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sRNA Annotations

2nd structure
(RNAfold)
sRNAG0034Get Sequence
Gene Name rseX
Synonyms IS096;b4603;ECK4412;
Position 2031673.....2031763
Length 91 bp
Strand forward
Gene Class regulator of OmpA and OmpC expression
Species Escherichia coli K12 MG1655
Evidence Inferred from direct assay;
Source regulonDB

Genome position Promoter site

Structural RNA alignment
(RNALogo)
Get alignment sequences

Descriptions


    "The small RNA RseX targets the ompA and ompC mRNAs and reduces their levels in the cell. The RNA-binding protein Hfq binds to RseX and is required for the activity of RseX (Douchin V,2006). RseX was identified as a mulitcopy suppressor that permits survival of depletion of the essential RIP protease RseP. In the absence of both OmpA and OmpC, the targets of RseX, RseP is not essential for survival. RseX also acts as a suppressor of a degS mutation, but it does not restore σE activity (Douchin V,2006). .....

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References

Douchin V, Bohn C, and Bouloc P (2006) "Down-regulation of porins by a small RNA bypasses the essentiality of the regulated intramembrane proteolysis protease RseP in Escherichia coli." J Biol Chem 281 (18)  PubMed
Vogel J, and Papenfort K (2006) "Small non-coding RNAs and the bacterial outer membrane." Curr Opin Microbiol 9 (6)  PubMed
Chen S, Lesnik EA, Hall TA, Sampath R, Griffey RH, Ecker DJ, and Blyn LB () "A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome." Biosystems 65 (2-3)  PubMed

Comparative Genomics by UCSC Genome Browser

Network Visualization

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sRNAs/Targets


sRNA Expression Profiles

TitleF plasmid induced changes in expression levels in E. coli
Citation(s)16432259;16981998;SeriesGSE1154
Samples
1:MG1655_replicate12:MG1655_replicate23:MG1655F_replicate1
4:MG1655F_replicate25:DH5alpha_replicate16:DH5alpha_replicate2
7:DH5alphaF_replicate18:DH5alphaF_replicate2
IG_1304_2028482_2032042_fwd_st
more

External Database Connections

ECK120029424
5061507
EG31170
G0-10574


Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

Contact with: bryan@mail.NCTU.edu.tw