gi_545778205_gb_U000_161

cmsearch-Rfam

Family :

OxyS

Id:

RF00035

Type:

Gene; sRNA;

Taxonomy:

Bacteria;

Ontology:

Not found

Description:

OxyS is a small untranslated RNA which is induced in response to oxidative stress in Escherichia
coli. This novel RNA acts as a global regulator to activate or repress the expression
of as many as 40 genes, including the fhlA-encoded transcriptional activator and the rpoS-encoded sigma(s)
subunit of RNA polymerase [1]. OxyS is bound by the Hfq protein, that increases the
OxyS RNA interaction with its target messages [2].

Score:

139.3

E-value:

7.2e-31

From sequence:

4158394

To sequence:

4158285

Alignments:

                                                                                                                 NC
                               <<<<<<<-<<<<-<<-<<___________>>->>-->>>>>>>>>>>,,<<<<______>>>>,,,,,,,,,,,,,,,,,, CS
               RF00035       1 ggaaCGGAGCgGuacCuCuUUUAACCCUUGaAguCACcGCCCGuuccGAGgGuuUCUCAaCcCGAAUAACUAAAGCCAACG 81     
                               G:AACGGAGC:G+ACCUCUUUUAACCCUUGAAGUCAC:GCCCGUU:CGAG:GUUUCUCAAC:CGAAUAACUAAAGCCAACG
  gi_545778205_gb_U000 4158394 GAAACGGAGCGGCACCUCUUUUAACCCUUGAAGUCACUGCCCGUUUCGAGAGUUUCUCAACUCGAAUAACUAAAGCCAACG 4158314
                               ********************************************************************************* PP

                                                             NC
                               ,,,,,,,,,<<<<<<<_____>>>>>>>: CS
               RF00035      82 UGAACUUUUGcGGacCUCcAuGguCCgCU 110    
                               UGAACUUUUGCGGA:CUCCA+G:UCCGCU
  gi_545778205_gb_U000 4158313 UGAACUUUUGCGGAUCUCCAGGAUCCGCU 4158285
                               ***************************** PP

RNAfold
>gi_545778205_gb_U000_161
GCGGAUCCUGGAGAUCCGCAAAAGUUCACGUUGGCUUUAGUUAUUCGAGU
UGAGAAACUCUCGAAACGGGCAGUGACUUCAAGGGUUAAAAGAGGUGCCG
CUCCGUUUC
(((((((.....))))))).((((((......))))))........(((((....)))))..(((((((((.((.(((((...........))))))).)).))))))) (-33.90)

Length sequence

: 109

Length match:

108