About Search Browse Statistics Tutorial Downloads


sRNA Annotations

2nd structure
(RNAfold)
sRNAG0049Get Sequence
Gene Name rygC
Synonyms ECK2908;t27;b4446;QUAD1c;
Position 3054871.....3055010
Length 140 bp
Strand forward
Gene Class RygC small RNA
Species Escherichia coli K12 MG1655
Evidence Inferred from direct assay;
Source regulonDB

Genome position

Structural RNA alignment
(RNALogo)
Get alignment sequences

Descriptions


            "RygC is a small RNA of approximately 107-139 nt in length (Wassarman KM,2001). RygC is transcribed from the region between the ygfA and serA genes; the exact nucleotide position is not reported (Hershberg R,2003). RygC contains a QUAD repeat (Wassarman KM,2001). Ryx: RNA of unknown function at X position ARRAY(0x4b249c) in the genome (Wassarman KM,2001). Regulation has been described (Wassarman KM,2001). Review: (Hershberg R,2003)."
 

References

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
Hershberg R, Altuvia S, and Margalit H (2003) "A survey of small RNA-encoding genes in Escherichia coli." Nucleic Acids Res 31 (7)  PubMed

Comparative Genomics by UCSC Genome Browser

Network Visualization

alt="Your browser understands the <APPLET> tag but isn't running the applet, for some reason." Your browser is completely ignoring the <APPLET> tag! Requires Java Web Start, which is automatically installed when you install JRE/JDK with version 1.4.2 above.

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_1897_3054810_3057772_fwd_st
more

External Database Connections

ECK120002597
EB4532
2847749
ABE-0047266
JWR0250
EG31159
G0-8886
b4446


Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

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