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sRNA Annotations

2nd structure
sRNAG0078Get Sequence
Gene Name glmY
Synonyms ECK2554;b4441;tke1;sroF;
Position 2689179.....2689362
Length 184 bp
Strand reverse
Gene Class GlmY small RNA regulator of glmS expression
Species Escherichia coli K12 MG1655
Evidence Inferred from direct assay;Inferred from mutant phenotype;
Source regulonDB

Genome position Promoter site

Structural RNA alignment
Get alignment sequences


    "GlmY is a small RNA that specifically increases synthesis of GlmS, encoded by the second open reading frame in the glmUS operon, without affecting GlmU synthesis. The effect of GlmY on GlmS expression requires sequence elements in the intergenic region between glmS and glmU (Urban JH,2007). The GlmY small RNA was first reported to be present as two RNA species of approximately 150 and 180 nt in length (Rivas E,2001). Later, it was shown that the two GlmY RNAs have the same 5" end; thus, the shorter species may be generat.....



Hershberg R, Altuvia S, and Margalit H (2003) "A survey of small RNA-encoding genes in Escherichia coli." Nucleic Acids Res 31 (7)  PubMed
Rivas E, Klein RJ, Jones TA, and Eddy SR (2001) "Computational identification of noncoding RNAs in E. coli by comparative genomics." Curr Biol 11 (17)  PubMed

Computational Records

Gene NameStartEndStrand
NC082 2689214 2689355 reverse

score Promoter score:53.83;Terminator score:-11.95;Z score-2.73
Note GenBank annotations:tke1/sroF
Methods program pftools2.2 to identify the putative sigma70 promoter; RNAMotif software to identify putative rho-independent terminators; Gapped Markov Model Index.
Species Escherichia coli K12 MG1655
Sequence Get Sequence

Comparative Genomics by UCSC Genome Browser

Network Visualization

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External Database Connections


Department of Biological Science and Technology,

Institute of Bioinformatics National Chiao Tung University, Hsinchu, Taiwan

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