gi_545778205_gb_U000_209

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:

132.1

E-value:

5.1e-30

From sequence:

1286841

To sequence:

1286710

Alignments:

                                                                                                                 NC
                               ::::::::::::::(((((((-(---------((-((----((((,,,<<_____.__>>,,,,,,<<<<<<____.>>>> CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGaccaAGGUuCGAgucgAGCGa.AGcgAGAaAaCGucGCgucA.GCga 79     
                               +U+ U + CA++ GGGG:AGGAUGAGAA CUUCGACCAAGGUUCGA+U:GAGCG  AGC:AGA+A+CGU:GC+ CA GC:A
  gi_545778205_gb_U000 1286841 AUUCUGCCCAAGCGGGGAAGGAUGAGAAGCUUCGACCAAGGUUCGACUUGAGCGCcAGCGAGAGAGCGUUGCCGCAgGCAA 1286761
                               ********************************************************************************* PP

                                                                                   NC
                               >>,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391      80 CGgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130    
                               CG+CCCGAAGGGCGA+GCGCG+AGCG++GAGUAAUCCU:CCCCCACCACCA
  gi_545778205_gb_U000 1286760 CGACCCGAAGGGCGAAGCGCGCAGCGCUGAGUAAUCCUUCCCCCACCACCA 1286710
                               *************************************************** PP

>>

RNAfold
>gi_545778205_gb_U000_209
GGUGGUGGGGGAAGGAUUACUCAGCGCUGCGCGCUUCGCCCUUCGGGUCG
UUGCCUGCGGCAACGCUCUCUCGCUGGCGCUCAAGUCGAACCUUGGUCGA
AGCUUCUCAUCCUUCCCCGCUUGGGCAGAAU
...(((((((.((((((.....(((((...)))))..((((...))))(((((((...))))))).......(((..((.(((((......))))).)).))).....))))))))))))).......... (-47.60)

Length sequence

: 131

Length match:

130