gi_545778205_gb_U000_206

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:

35.8

E-value:

3e-05

From sequence:

1097158

To sequence:

1097022

Alignments:

                                                   v                    vv                      vv               NC
                               ::::::::::::::(((((((-(---------((-((----((((,,,~~~~~~~~~~~~,,,))))-))))--------- CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGaccaAGGUuCGAgu*[11]**[22]*gCCCGaAGggCGAGGcgCgaA 102    
                                UAUU ++CA A  GGGG:G  UGAGAA C  CGACC  GG  CGA+             GCCCG  GGGCGAG  +    
  gi_545778205_gb_U000 1097158 GUAUUGCACACACCGGGGGGA-UGAGAAGCCCCGACCGGGGGUCGACA*[23]**[23]*GCCCGCAGGGCGAGCGA---- 1097049
                               *************99988877.***************999999***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 1097048 --AGCGAGUCAaUCCCCCCCUCACCGCCA 1097022
                               ..56778887626667778899******* PP

>>

RNAfold
>gi_545778205_gb_U000_206
GGCGGUGAGGGGGGGAUUGACUCGCUUCGCUCGCCCUGCGGGCAGCCCGC
UCACUGCGUUCACGGUCUGUCCAACUGGCUGUCGCCAGUUGUCGACCCCC
GGUCGGGGCUUCUCAUCCCCCCGGUGUGUGCAAUAC
((((((((((.(((......))).)))))).)))).((((.(((...(((.....))).....((((.(..((((((((....)))))))).))))).((((..((((........))))))))))).)))).... (-60.80)

Length sequence

: 136

Length match:

135