gi_545778205_gb_U000_221

cmsearch-Rfam

Family :

RtT

Id:

RF00391

Type:

Cis-reg;

Taxonomy:

Eukaryota; Bacteria;

Ontology:

Not found

Description:

This family represents a bacterial cis-regulatory element known as RtT RNA. The exact function of RtT
is unknown although it is thought that it may be involved in changing the cellular
response in relation to amino acid starvation [1].

Score:

48.8

E-value:

1.4e-08

From sequence:

781683

To sequence:

781808

Alignments:

                                            v vv v             v vv                                 v           v NC
                              ::::::::::::::(((((((-(---------((-((----((((,,,<<_______>>,,,,,,<<...<<<<____.>>>> CS
               RF00391      1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGaccaAGGUuCGAgucgAGCGaAGcgAGAaAaCG...ucGCgucA.GCga 79    
                              U  U U+    AU+ :  A GAU  GAACCU C +   AGGUU GAGU:GAGCG AGC:A A+AACG    CGC     GCG 
  gi_545778205_gb_U000 781683 UGCUAUCUGCGAUACUCAAAGAUUCGAACCUGCAG--CAGGUUUGAGUUGAGCGCAGCGAAACAACGgagCCGCUCGCgGCGA 781763
                              ******************************98776..49****************************888888888878**** PP

                                        vvv                       v vv v          NC
                              >>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391     80 CGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130   
                              CGGCCC AAGGG GAG    GA     CGAGU+AUC U  :  ++CCACCA
  gi_545778205_gb_U000 781764 CGGCCCGAAGGGCGAGC---GA---AGCGAGUCAUCCUGCACGACCCACCA 781808
                              **********9988743...44...5578********************** PP

>>

RNAfold
>gi_545778205_gb_U000_221
UUGCUAUCUGCGAUACUCAAAGAUUCGAACCUGCAGCAGGUUUGAGUUGA
GCGCAGCGAAACAACGGAGCCGCUCGCGGCGACGGCCCGAAGGGCGAGCG
AAGCGAGUCAUCCUGCACGACCCACCAAU
.......(((((...((((...(((((((((((...)))))))))))))))))))).........(((...((((((..((...((((...))))...))..))))))..)))................ (-46.30)

Length sequence

: 129

Length match:

124