chr32_4

cmsearch-Rfam

Family :

IRES_c-myc

Id:

RF00216

Type:

Cis-reg; IRES;

Taxonomy:

Eukaryota;

Ontology:

GO:0043022 ribosome binding

Description:

This family represents the c-myc internal ribosome entry site (IRES). The mammalian c-myc gene is a
proto-oncogene which is required for cell proliferation, transformation and death. c-myc mRNA has an alternative
method of translation via internal ribosome entry where ribosomes are recruited to the IRES located
in the 5' UTR thus bypassing the typical eukaryotic cap-dependent translation pathway [1].

Score:

22.6

E-value:

0.0034

From sequence:

804660

To sequence:

804818

Alignments:

                               v v             v v               v      v                          v         v    NC
                 :::::::::::::((((-((((-----((((((-((-((((-(((-(((------((((,~~~~~~~~~~~~~~~~~~,))))---------)))) CS
  RF00216      1 AAUUcCAGCGAGAGGCaGaGGGAGCGAGCGGgCGGCcGgCuAGGGUGGaAGAGCCGGgCG*[ 9]**[36]**[24]*AGcCCUCCCGCUGAuCCC 147   
                 A   C A C AGA  :  AG:GAG GAG:G G GG: GG::AG G GG A AG CG                              C C G  CCC
    chr32 804660 AGAGCAAACAAGAGCAUAAGAGAGAGAGAGAGAGGGGGGAAAGGGGGGAAUAGGCG----*[17]**[16]**[11]*--------CCCCGCCCCC 804769
                 ************9999999*****************9*************999885.......9.....*.....7..........4455779999 PP

                           v v         v v                NC
                 ))))))-))-))))))--))))))))----~~~~~~~::: CS
  RF00216    148 CCaGcCAGCgGcCCGCAACCCuuGCCGCAU*[122]*CGC 302   
                  C::CC :CG C C:C AC:CU :  GCA        CGC
    chr32 804770 UCUUCCCCCGCCCCUCUACUCUUUCUGCAC*[ 16]*CGC 804818
                 9*********************99999874....8..*** PP

>>

RNAfold
>chr32_4
AAAAAAAGGACAUGGGGCAAAGGAGCAGCCAGAGAGAGAGAGAGGCAGCA
GCGAGGCGACCAGUACAAAGGAGAGCAAACAAGAGCAUAAGAGAGAGAGA
GAGAGGGGGGAAAGGGGGGAAUAGGCGGCGAGGCCCCUCACAUACACGCU
CGUCCACCCGCCGUCCACGCACCCCGCCCCCUCUUCCCCCGCCCCUCUAC
UCUUUCUGCACUGUUCCCUCAUCAACACGCCUUCUCACACCCCUCCUUAA
CAACGUAUGCUCUCCAGUCCGGCCCCUUCGGGUCAUUUUUGGAGGGAAUC
CC
.....(((((...((((....(..((.(((.............))).))..)((((((.((........)).(((..((((.(.(((...(((((((((((.(..(((((((.((((((....(((((((.((.......................)))))))))..((.....)))))))).)))))))..).)))).)))))))))).)))))..))).......))))))......)))))))))...........((((((((...(((((....)))))....))))))))...... (-104.80)

Length sequence

: 302

Length match:

157