gi_545778205_gb_U000_2

cmsearch-Rfam

Family :

5_8S_rRNA

Id:

RF00002

Type:

Gene; rRNA;

Taxonomy:

Eukaryota; Bacteria; Viruses; Archaea;

Ontology:

GO:0003735 structural constituent of ribosomeRF00002

Description:

5.8S ribosomal RNA (5.8S rRNA) is a component of the large subunit of the eukaryotic ribosome.
It is transcribed by RNA polymerase I as part of the 45S precursor that also
contains 18S and 28S rRNA. Functionally, it is thought that 5.8S rRNA may be involved
in ribosome translocation [2]. It is also known to form covalent linkage to the p53
tumour suppressor protein [3]. 5.8S rRNA is also found in archaea.

Score:

38.9

E-value:

4.3e-08

From sequence:

2729172

To sequence:

2729019

Alignments:

                                                                                                                 NC
                               :::::::::::::::::::::::::.::::::::::::::((((<<<<______>>>>,,,,,,,<<<----~~~~~~--- CS
               RF00002       1 AACuuUuAgCGAUGGAUguCUuGGC.UCccGuaUCGAUGAAgaaCGCaGCaAAauGCGAUAcGUaguGUGAA*[14]*gAA 88     
                               AA   U  +CG+UGGAUG C UGGC   C G   CGAUGAAG:ACG:   AA   :CGAUA+G++ :G  AA       AA
  gi_545778205_gb_U000 2729172 AAGCGUACACGGUGGAUGCCCUGGCaGUCAGAGGCGAUGAAGGACGUGCUAAUCUGCGAUAAGCGUCGGUAA*[17]*UAA 2729081
                               *************************967788999*************86666669*************9888...8..578 PP

                                                                                                   NC
                               ->>>,,,,,,)))),,,<<<.___>>><<<<<<<<<____>>>>>>>>>:::::::::::::::::: CS
               RF00002      89 UCacCGAAucuucGAACGCa.aaUuGCGcccccgggUuuucccgggggCAUgccUGuuugAGUGUCa 154    
                                C: CGA U+U:CGAA G : AA : C:::::::  UU+   :::::::AU   U  +UGA U   +
  gi_545778205_gb_U000 2729080 CCGGCGA-UUUCCGAAUGGGgAAACCCAGUGUGU--UUCG--ACACACUAUCAUUAACUGAAUCCAU 2729019
                               8999998.79*******88735667889999888..9999..8889999****************** PP

>>

RNAfold
>gi_545778205_gb_U000_2
UGGAUUCAGUUAAUGAUAGUGUGUCGAAACACACUGGGUUUCCCCAUUCG
GAAAUCGCCGGUUAUAACGGUUCAUAUCACCUUACCGACGCUUAUCGCAG
AUUAGCACGUCCUUCAUCGCCUCUGACUGCCAGGGCAUCCACCGUGUACG
CUU
((((((((.....)))((((((((....))))))))(((((((......)))))))((((.......))))...............((((((.(((...))).)))..))).......(((.(((.....)))))))))))............ (-38.90)

Length sequence

: 153

Length match:

152