gi_545778205_gb_U000_216

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:

105.7

E-value:

3.1e-23

From sequence:

3708581

To sequence:

3708448

Alignments:

                                               v                  vv          v                                  NC
                               ::::::::::::::(((((((-(---------((-((.....----((((,,,<<_______>>,,,,,,<<<<<<____> CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGacc.....aAGGUuCGAgucgAGCGaAGcgAGAaAaCGucGCgucAG 76     
                               U  +U+UGCA  U :: GAGGAUGAGAACCU CG+        AGGU CGA+UCGAGCGAAGCGAGA+AACGU:GCG CAG
  gi_545778205_gb_U000 3708581 UGCAUCUGCAGCUCAU-GAGGAUGAGAACCUCCGGGGgcaggGAGGUUCGACUCGAGCGAAGCGAGAGAACGUUGCGCCAG 3708502
                               ****************.*****************65566899*************************************** PP

                                         v  vv                           v            NC
                               >>>>>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391      77 CgaCGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130    
                               C:ACGGCCCG AG  CGAG C+CGAAG+G CGAGUAAUCCUC+::C++C ACCA
  gi_545778205_gb_U000 3708501 CAACGGCCCGCAGGGCGAGCCACGAAGUGGCGAGUAAUCCUCUAUCACCGACCA 3708448
                               ****************************************************** PP

>>

RNAfold
>gi_545778205_gb_U000_216
GGUCGGUGAUAGAGGAUUACUCGCCACUUCGUGGCUCGCCCUGCGGGCCG
UUGCUGGCGCAACGUUCUCUCGCUUCGCUCGAGUCGAACCUCCCUGCCCC
CGGAGGUUCUCAUCCUCAUGAGCUGCAGAUGCA
....(((((..((((((....(((((.....((((((((...))))))))....)))))....)))))))))))..(((((((..((((((((........)))))))).....)))..))))(((....))) (-49.50)

Length sequence

: 133

Length match:

132