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sRNA Annotations

2nd structure
(RNAfold)
sRNAG0052Get Sequence
Gene Name ryhA
Synonyms ECK3199;sraH;b4450;psrA16;
Position 3348599.....3348706
Length 108 bp
Strand forward
Gene Class small RNA that interacts with Hfq
Species Escherichia coli K12 MG1655
Evidence Inferred from direct assay;
Source regulonDB

Genome position Promoter site

Structural RNA alignment
(RNALogo)
Get alignment sequences

Descriptions


    "SraH is a small RNA of approximately 88-108 nt in length (Argaman L,2001). RyhA is a small RNA of approximately 45 nt in length (and larger species have also been detected) (Wassarman KM,2001). SraH and RyaH are reported to be the same RNA (Gottesman S,2001). An interaction between RyhA RNA and Hfq protein has been detected (Wassarman KM,2001). SraH is subject to processing; the mature RNA is 42 nt in length (Argaman L,2001). High-copy expression causes increased expression of rpoS in minimal media (Wassarman KM,2001). SraH RNA has similari.....

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References

Argaman L, Hershberg R, Vogel J, Bejerano G, Wagner EG, Margalit H, and Altuvia S (2001) "Novel small RNA-encoding genes in the intergenic regions of Escherichia coli." Curr Biol 11 (12)  PubMed
Wassarman KM, Repoila F, Rosenow C, Storz G, and Gottesman S (2001) "Identification of novel small RNAs using comparative genomics and microarrays." Genes Dev 15 (13)  PubMed
Gottesman S, Storz G, Rosenow C, Majdalani N, Repoila F, and 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 ()  PubMed
Vogel J, Bartels V, Tang TH, Churakov G, Slagter-Jäger JG, Hüttenhofer A, and Wagner EG (2003) "RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria." Nucleic Acids Res 31 (22)  PubMed

Comparative Genomics by UCSC Genome Browser

Network Visualization

Regulators/sRNAs


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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_2088_3346726_3352266_fwd_st
more

External Database Connections

ECK120002583
EB4537
2847690
ABE-0047270
JWR0254
EG31163
G0-8871
b4450
RF00081


Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

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