gi_545778205_gb_U000_208

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:

45.8

E-value:

7.8e-08

From sequence:

1097520

To sequence:

1097384

Alignments:

                                                   v                     v                      v                NC
                               ::::::::::::::(((((((-(---------((-((----((((,,,~~~~~~~~~~~~,,,))))-))))--------- CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGaccaAGGUuCGAgu*[11]**[22]*gCCCGaAGggCGAGGcgCgaA 102    
                               +UAUU ++CA A  GGGG:G  UGAGAA C  CGACC  GGU CGA+             GCCCG AGGGCGAG  +    
  gi_545778205_gb_U000 1097520 AUAUUGCACACACCGGGGGGA-UGAGAAGCCCCGACCGGGGUUCGACA*[21]**[25]*GCCCGCAGGGCGAGCGA---- 1097411
                               *************99988877.************************99...7.....8..89**********95443.... PP

                                            v                NC
                               ----------).-)))))))::::::::: CS
               RF00391     103 GcGaCGAgUaA.UCCucCcCccaCCACCA 130    
                                   CGAGU+A U C:CCCC CACC CCA
  gi_545778205_gb_U000 1097410 --AGCGAGUCAaUCCCCCCCUCACCGCCA 1097384
                               ..56778887626667778899******* PP

>>

RNAfold
>gi_545778205_gb_U000_208
GGCGGUGAGGGGGGGAUUGACUCGCUUCGCUCGCCCUGCGGGCAGCCCGC
UCACUGCGUUCACGGUCUGUCCAACUGGCUGUCGCCAGUUGUCGAACCCC
GGUCGGGGCUUCUCAUCCCCCCGGUGUGUGCAAUAU
((((((((((.(((......))).)))))).)))).((((.(((...(((.....))).....(((.((..((((((((....)))))))).)).)))((((..((((........))))))))))).)))).... (-59.30)

Length sequence

: 136

Length match:

135