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sRNA Annotations

2nd structure
(RNAfold)
sRNAG0039Get Sequence
Gene Name rydC
Synonyms b4597;ECK4407;
Position 1489467.....1489530
Length 64 bp
Strand reverse
Gene Class RydC small RNA
Species Escherichia coli K12 MG1655
Evidence Inferred from mutant phenotype;
Source regulonDB

Genome position Promoter site

Structural RNA alignment
(RNALogo)
Get alignment sequences

Descriptions


    "RydC is a small RNA regulator of the yejABEF mRNA, which encodes a predicted ABC permease (Antal M,2005). Hfq binds to RydC in vivo (Zhang A,2003) and in vitro and stabilizes it (Antal M,2005). RydC folds into a pseudoknot structure which is modified upon Hfq binding. The RydC-Hfq complex is able to specifically bind to yejABEF mRNA. Overexpression of RydC leads to degradation of yejABEF mRNA (Antal M,2005). A rydC deletion strain has no detectable growth defect, but overexpression of RydC leads to .....

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References

Antal M, Bordeau V, Douchin V, and Felden B (2005) "A small bacterial RNA regulates a putative ABC transporter." J Biol Chem 280 (9)  PubMed
Zhang A, Wassarman KM, Rosenow C, Tjaden BC, Storz G, and Gottesman S (2003) "Global analysis of small RNA and mRNA targets of Hfq." Mol Microbiol 50 (4)  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_927_1488390_1489985_rev_st
more

External Database Connections

ECK120030076
5061508
EG31168
G0-10592
RF00505


Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

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