gi_545778205_gb_U000_215

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:

30.6

E-value:

0.00063

From sequence:

2818449

To sequence:

2818339

Alignments:

                                             vv  v             v   v     vvvv   vv       vv                      NC
                               ::::::::::::::(((((((-(---------((-((.----((((,,,<<_______>>,,,,,,<<<<<<____>>>>> CS
               RF00391       1 uuauuuugcauaugGgGgaGGAUGAgAAcCuUCGacc.aAGGUuCGAgucgAGCGaAGcgAGAaAaCGucGCgucAGCgaC 80     
                               ++  U UG A+++G  GG GG U A AACC   G+C   AGG                 + GA AACGU:GC U AGC:AC
  gi_545778205_gb_U000 2818449 AAGGUAUGGAAGAGGUGGCGG-UAAUAACCGCAGGCAcCAGG----------------GAGGAUAACGUUGCUUUAGCAAC 2818386
                               *********************.**999986644432234444................23789999*************** PP

                                   vvvv v  v                       v  vv          NC
                               >,,,))))-))))-------------------)-)))))))::::::::: CS
               RF00391      81 GgCCCGaAGggCGAGGcgCgaAGcGaCGAgUaAUCCucCcCccaCCACCA 130    
                               GGCCCGAAG GC AG CGC+A   G CGAGUAAUCC CC   +  CACCA
  gi_545778205_gb_U000 2818385 GGCCCGAAGGGCGAGCCGCAA---GGCGAGUAAUCCUCCCGGAUGCACCA 2818339
                               ************999998887...8889********************** PP

RNAfold
>gi_545778205_gb_U000_215
AGUAAGAGAUGGUGCAUCCGGGAGGAUUACUCGCCUUGCGGCUCGCCCUU
CGGGCCGUUGCUAAAGCAACGUUAUCCUCCCUGGUGCCUGCGGUUAUUAC
CGCCACCUCUUCCAUACCUUCAUCGCUGAA
.(((.((((.((((((((.((((((((.....(((....)))..((((...))))((((((....))))))..)))))))).))))...(((((....)))))))))))))...)))............. (-49.10)

Length sequence

: 130

Length match:

109