gi_545778205_gb_U000_214

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:

32.2

E-value:

0.00026

From sequence:

2818051

To sequence:

2817924

Alignments:

                                             vv v                 vv     v                                       NC
                               ::::::::::::::(((((((-(---------((-((----((.((,,,<<___~~~~~~>>,,,,,,<<<<<<____>>> CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGaccaAGGUu.CGAgucgAGC*[ 4]*cgAGAaAaCGucGCgucAGCg 78     
                                 A+ U+ + ++ +  G AGG U       +UCGA   AGGU  CG   : A C       : GA AACGU:GC U AGC:
  gi_545778205_gb_U000 2818051 CGAAAUCUUCAGCAAUGAAGG-U-------AUCGA-AGAGGUAgCGGAAUUAAC*[13]*GAUGAUAACGUUGCUUUAGCA 2817973
                               *********************.9.......79**9.55999955**99998654...7..99******************* PP

                                       v  vv                          v vv          NC
                               >>>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391      79 aCGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130    
                               ACGGCCCG AG GCGAG CGC+A   G CGAGUAAUCCU C   +  CACCA
  gi_545778205_gb_U000 2817972 ACGGCCCGAAGGGCGAGCCGCAA---GGCGAGUAAUCCUCCCGGAUGCACCA 2817924
                               ****************9999998...8889********************** PP

>>

RNAfold
>gi_545778205_gb_U000_214
UGGUGCAUCCGGGAGGAUUACUCGCCUUGCGGCUCGCCCUUCGGGCCGUU
GCUAAAGCAACGUUAUCAUCCCUAGUGCCUGCGGUUAAUUCCGCUACCUC
UUCGAUACCUUCAUUGCUGAAGAUUUCGG
.((.((((..((((.(((.....(((....)))..((((...))))((((((....))))))..))).))))..))))))((((......)))).......((((...(((((....)))))...)))) (-40.00)

Length sequence

: 129

Length match:

126