chr31_2

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:

93.5

E-value:

2.2e-19

From sequence:

965247

To sequence:

965129

Alignments:

                  v     v                                                                                         NC
                 (((((((((,,,,<<-<<<<<---<<--<<<<<<______>>-->>>>-->>---->>>>>-->><<<-<<----<-<<-----<<____>>---- CS
  RF00001      1 gccuGcggcCAUAccagcgcgaAagcACcgGauCCCAUCcGaACuCcgAAguUAAGcgcgcUugggCcagggUAGUAcuagGaUGgGuGAcCuCcU 96    
                 G :U:CG CCA AC: G:G:GAAA:CACC: AUCCC+UCCGA  U :GAAG:UAAGC:C:C  :GGC: :G UAGUACU+ G+U::GUGA::+C  
    chr31 965247 GAGUACGACCACACUUGAGUGAAAACACCAUAUCCCGUCCGAUUUGUGAAGUUAAGCACUCACAGGCUCAGUUAGUACUGAGGUCAGUGAUGACUC 965152
                 ************************************************************************************************ PP

                               v     v   NC
                 ->>->-->>->>>))))))))): CS
  RF00001     97 GggAAgaccagGugccgCaggcc 119   
                 GGGAA  C: :GUG CG:A: CC
    chr31 965151 GGGAACCCUGAGUGCCGUACCCC 965129
                 *********************** PP

>>

RNAfold
>chr31_2
GGGUACGGCACUCAGGGUUCCCGAGUCAUCACUGACCUCAGUACUAACUG
AGCCUGUGAGUGCUUAACUUCACAAAUCGGACGGGAUAUGGUGUUUUCAC
UCAAGUGUGGUCGUACUC
(((((((((((.((....(((((.((((....))))((((((....))))))(((((((((.....)).)))))....)).)))))..))))))..((((......)))).))))))) (-37.20)

Length sequence

: 118

Length match:

117