RyeE, |
cmscan-Rfam |
Family : CyaR_RyeE |
Id: RF00112 |
Type: Gene; sRNA; |
Taxonomy: Eukaryota; Bacteria; Viruses; | Ontology: Not found |
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Description: This sRNA was originally identified in a large scale screen of E. coli. It was shown to bind Hfq and called RyeE [1]. This sRNA has since been characterised as a post-transcriptional regulator of the 18 kDa OmpX porin in Salmonella [2]. Phylogenetic and mutational analyses suggest that a conserved RNA hairpin of this sRNA which features a C-rich apical loop, acts to sequester the Shine-Dalgarno sequence of ompX mRNA and inhibits translational initiation [2]. The expression of this sRNA has been shown to be tightly controlled by the cyclic AMP receptor protein, CRP and has been renamed CyaR (cyclic AMP-activated RNA)[2]. CyaR appears to be highly conserved amongst enterobacteria and the cyaR gene is frequently located downstream of the yegQ gene. |
Score: 99.7 |
E-value: 8.2e-22 |
From sequence: 1 |
To sequence: 86 |
Alignments: NC ::::::::::::::::::::::.:::::::::::::::<<<<______>>>>-<<<<<<<<<<<______>>>>>>>>>>>::::: CS RF00112 1 ucGauuAAAAacAuaAaCuAaA.AAUguUAGcaauACuAGGAACCACCUCCUUgGCCcGcgcAAUCUCCCUUgcgCgGGCcUuUUu 85 UCG+U+AAAAACAUAA+C+A+A AAUG+UAGC++UAC+AGGAACCACCUCCUU:GCC:G:G:AAUCUCCCUU:C:C:GGC:U+UUU RyeE, 1 UCGCUGAAAAACAUAACCCAUAaAAUGCUAGCUGUACCAGGAACCACCUCCUUAGCCUGUGUAAUCUCCCUUACACGGGCUUAUUU 86 *********************9899999********************************************************** PP
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RNAfold |
>RyeE, cgcugaaaaacauaacccauaaaaugcuagcuguaccaggaaccaccucc uuagccuguguaaucucccuuacacgggcuuauuu .((((......................))))......((((......)))).(((((((((((......)))))))))))..... (-19.50) |
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Length sequence: 85 |
Length match: 84 |