gi_545778205_gb_U000_213

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:

49.3

E-value:

1e-08

From sequence:

2521359

To sequence:

2521484

Alignments:

                                             v vv v             v vv                                 v           NC
                               ::::::::::::::(((((((-(---------((-((----((((,,,<<_______>>,,,,,,<<...<<<<____.>> CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGaccaAGGUuCGAgucgAGCGaAGcgAGAaAaCG...ucGCgucA.GC 77     
                               U+ U U+    AU+ :  A GAU  GAACCU C +   AGGUU GAGU:GAGCG AGC:A A+AACG    CGC     GC
  gi_545778205_gb_U000 2521359 UACUAUCUGCGAUACUCAAAGAUUCGAACCUGCAG--CAGGUUUGAGUUGAGCGCAGCGAAACAACGgagCCGCUCGCgGC 2521437
                               ******************************98776..49****************************888888888878** PP

                                v          vvv                       v vv v          NC
                               >>>>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391      78 gaCGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130    
                               G CGGCCC AAGGG GAG    GA     CGAGU+AUC U  :  ++CCACCA
  gi_545778205_gb_U000 2521438 GACGGCCCGAAGGGCGAGC---GA---AGCGAGUCAUCCUGCACGACCCACCA 2521484
                               ************9988743...44...5578********************** PP

>>

RNAfold
>gi_545778205_gb_U000_213
UUACUAUCUGCGAUACUCAAAGAUUCGAACCUGCAGCAGGUUUGAGUUGA
GCGCAGCGAAACAACGGAGCCGCUCGCGGCGACGGCCCGAAGGGCGAGCG
AAGCGAGUCAUCCUGCACGACCCACCAAU
.......(((((...((((...(((((((((((...)))))))))))))))))))).........(((...((((((..((...((((...))))...))..))))))..)))................ (-46.30)

Length sequence

: 129

Length match:

124