gi_545778205_gb_U000_78

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:

30.3

E-value:

2.8e-06

From sequence:

655274

To sequence:

655419

Alignments:

                                                                                                                  NC
                              :::::::::::::~~~~~~~--------------------------------------------------------------- CS
               RF00216      1 AAUUcCAGCGAGA*[160]*GCAUCCACGAAACUUUGCCCAUAGCAGcGGGCGGGCACUUUGCACUGGAACUUACAACACCCg 236   
                              A UUC  G GAGA         AUCCA   AAC UUGCC   AG AG GGGCG  C C  UGC   G  A UU CA CA   G
  gi_545778205_gb_U000 655274 AUUUCAUGAGAGA*[ 11]*UUAUCCAGAUAACGUUGCCAGAAGAAGUGGGCGAUCGCCAUGC--CGAUAAUUGCAGCAAUUG 655358
                              *******999999....8..9*************************************99996..689999************ PP

                                                          v                            v         NC
                              -----------------------<<<<<<<<<--------<<<____>>>---->>>>>>>>>::: CS
               RF00216    237 AGCAAGGACGCGACUCUCCCGACGCGGGGagGCUAUUCUGCCCAUUUGGGGACACcuCCCCGCCGC 302   
                              AG  AGG  GCG C  U    A GCG   A:G  A UC GC::  UU::GGA  C:U   CGCCGC
  gi_545778205_gb_U000 655359 AGAUAGGCAGCGUCGUUUUGAAGGCG---AAGUCAAUCAGCGACAUUUCGGAAGCUUG--CGCCGC 655419
                              **************************...9**************************95..****** PP

RNAfold
>gi_545778205_gb_U000_78
GUACACCGAUGAUCGGCGUGAACGGCAAAAUGGCAUAAAACGCAGGAGCA
GUGGUGGUGAUUUCACUGACAUCUAACAUUUCAUGAGAGAUGUGCUCUUU
UUUAUCCAGAUAACGUUGCCAGAAGAAGUGGGCGAUCGCCAUGCCGAUAA
UUGCAGCAAUUGAGAUAGGCAGCGUCGUUUUGAAGGCGAAGUCAAUCAGC
GACAUUUCGGAAGCUUGCGCCGCCAGCACCACAUCCCCUGAAGUCGGUGC
GAGAAUAAUCGCCGCCGGGGAGGCACAAAUGGCAGCAGCUGCGCCACGAC
U
...........(((((((((...(((((..(((.((((((...((((((((((..((((....))))..)))....((((((....)))))))))))))))))))))).......))))).......((((....)))))))))))))...((((((......(((.(((..((((........))))..))).)))(((..(......)..)))...((.((((........(((((.......(((((((......))).)))))))))........)))).)).))))))........ (-88.60)

Length sequence

: 301

Length match:

144