gi_545778205_gb_U000_75

cmsearch-Rfam

Family :

Histone3

Id:

RF00032

Type:

Cis-reg;

Taxonomy:

Eukaryota; Bacteria; Viruses; Archaea;

Ontology:

GO:0006398 histone mRNA 3'-end processing

Description:

The mRNAs of metazoan histone genes lack a poly-A tail. 3' end processing occurs at a
site between a highly conserved stem-loop (modelled by this family) and a purine rich region
around 20 nts downstream (the histone downstream element, or HDE). The stem-loop is bound by
a 31 kDa stem-loop binding protein (SLBP - also termed the histone hairpin binding protein,
or HBP). Together with U7 snRNA binding of the HDE, SLBP binding nucleate s the
formation of the processing complex. The histone 3' UTR stem-loop is also involved in nucleocytoplasmic
transport of the mRNA, and in stability regulation and translation efficiency in the cytoplasm.

Score:

23.6

E-value:

0.00062

From sequence:

2775049

To sequence:

2775005

Alignments:

                                                                              NC
                               :::::<<<<<<____>>>>>>::::::::::::::::::::::::: CS
               RF00032       1 ccAAaGGCUCUUUUaAGAGCCACcaAcAuuuacaaaaAaauuuUgU 46     
                               ++AAAGGCUC:+ U :GAGCCA +  C UU+ +A AA AA+UUU  
  gi_545778205_gb_U000 2775049 AAAAAGGCUCCAAUUGGAGCCAAAUGCGUUACAAGAAUAAAUUUU- 2775005
                               ************************899997888887777777777. PP

RNAfold
>gi_545778205_gb_U000_75
AAAAUUUAUUCUUGUAACGCAUUUGGCUCCAAUUGGAGCCUUUUUA
........................((((((....))))))...... (-11.10)

Length sequence

: 46

Length match:

43