QUAD1a_RyeC,

cmscan-Rfam

Family :

SIB_RNA

Id:

RF00113

Type:

Gene; antitoxin;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

GO:0003729 mRNA binding

Description:

This family contains multiple ncRNA from E. coli that were identified in a large scale screen
of E. coli, were they were called candidates 43,55 and 61 [1]. These RNAs have
also been identified by other groups and called QUAD RNAs.

Score:

114.7

E-value:

6.2e-26

From sequence:

1

To sequence:

116

Alignments:

                                                                                                                     NC
                   ~~~~~~(--((((((,,<<<..____________>>>,<<<<________________________________________>>>><<<<<<<____ CS
       RF00113   1 <[33]*AgUaAGGGuaAGGg..aGGaUuuCuCCucCCuCUGguuguCUUAgUAaGCuggGaAaCUuAUgAgUAAcAGuAcaAcCAGuAUGAUGAcua 122
                         AGU:AGGGU AGGG  AGG UU C+CCUCCC+CUGGU  UCUUAGUAAGC  GGAA+CU+AU+A+UAA+AGUA+ ACCAGUAUGAUGAC +
  QUAD1a_RyeC,   1 <[ 0]*AGUGAGGGUUAGGGagAGGUUUCCCCCUCCCCCUGGUGUUCUUAGUAAGCCUGGAAGCUAAUCACUAAGAGUAUCACCAGUAUGAUGACGU 91 
                   ......***********99976678888888888*************************************************************** PP

                                     ???     NC
                   ____>>>>>>>)))))))))):::: CS
       RF00113 123 guuuCAUCAUaaCCCUuUCCUUaUu 147
                   G+UUCAUCAUAACCCU:UCCUUAUU
  QUAD1a_RyeC,  92 GCUUCAUCAUAACCCUUUCCUUAUU 116
                   ************************* PP

RNAfold
>QUAD1a_RyeC,
gugaggguuagggagagguuucccccucccccugguguucuuaguaagcc
uggaagcuaaucacuaagaguaucaccaguaugaugacgugcuucaucau
aacccuuuccuuauuaaaagcccucuucuccgggagaggcuuu
..((((((..(((((.((....)).))))).((((((((((((((.(((......)))....))))))))...))))))((((((((......)))))))))))))).........((((((.(((((....))))))))))) (-55.70)

Length sequence

: 143

Length match:

115