chr23_1

cmsearch-Rfam

Family :

5S_rRNA

Id:

RF00001

Type:

Gene; rRNA;

Taxonomy:

Eukaryota; Bacteria; Viruses; Archaea;

Ontology:

GO:0003735 structural constituent of ribosomeRF00001

Description:

5S ribosomal RNA (5S rRNA) is a component of the large ribosomal subunit in both prokaryotes
and eukaryotes. In eukaryotes, it is synthesised by RNA polymerase III (the other eukaryotic rRNAs
are cleaved from a 45S precursor synthesised by RNA polymerase I). In Xenopus oocytes, it
has been shown that fingers 4-7 of the nine-zinc finger transcription factor TFIIIA can bind
to the central region of 5S RNA. Thus, in addition to positively regulating 5S rRNA
transcription, TFIIIA also stabilises 5S rRNA until it is required for transcription.

Score:

99.4

E-value:

6.7e-21

From sequence:

215667

To sequence:

215549

Alignments:

                        v                                                                                         NC
                 (((((((((,,,,<<-<<<<<---<<--<<<<<<______>>-->>>>-->>---->>>>>-->><<<-<<----<-<<-----<<____>>---- CS
  RF00001      1 gccuGcggcCAUAccagcgcgaAagcACcgGauCCCAUCcGaACuCcgAAguUAAGcgcgcUugggCcagggUAGUAcuagGaUGgGuGAcCuCcU 96    
                 G::U:CG CCAUAC: G:G:GAAA:CACC: AUCCC+UCCGA  U :GAAG:UAAGC:C:C  :GGC: :G UAGUACU+ G+U::GUGA::+C  
    chr23 215667 GAGUACGACCAUACUUGAGUGAAAACACCAUAUCCCGUCCGAUUUGUGAAGUUAAGCACUCACAGGCUCAGUUAGUACUGAGGUCAGUGAUGACUC 215572
                 ************************************************************************************************ PP

                               v         NC
                 ->>->-->>->>>))))))))): CS
  RF00001     97 GggAAgaccagGugccgCaggcc 119   
                 GGGAA  C: :GUG CG:A::CC
    chr23 215571 GGGAACCCUGAGUGCCGUACUCC 215549
                 *********************** PP

>>

RNAfold
>chr23_1
GAGUACGGCACUCAGGGUUCCCGAGUCAUCACUGACCUCAGUACUAACUG
AGCCUGUGAGUGCUUAACUUCACAAAUCGGACGGGAUAUGGUGUUUUCAC
UCAAGUAUGGUCGUACUC
(((((((((.........(((((.((((....))))((((((....))))))(((((((((.....)).)))))....)).)))))...((((....))))........))))))))) (-37.00)

Length sequence

: 118

Length match:

117