chr2_6

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:

22.0

E-value:

0.0052

From sequence:

202838

To sequence:

202708

Alignments:

                                 v vv                  v                 vv                       vv              NC
                 :::::::::::::((((-((((-----((((((-((.-((((-(((-(((------((((,~~~~~~~~~~~~~~~~~,))))---------)))) CS
  RF00216      1 AAUUcCAGCGAGAGGCaGaGGGAGCGAGCGGgCGGC.cGgCuAGGGUGGaAGAGCCGGgCG*[9]**[36]**[24]*AGcCCUCCCGCUGAuCCC 147   
                 A     AG GAGAGG: G  GG GCG G GG::G:    G: AGGG GG:                               +C   CGC   :CCC
     chr2 202838 AGAGAGAGAGAGAGGAAG-UGGGGCGGGGGGGGGAGgGAGGGAGGGAGGGGA---------*[7]**[ 3]**[ 6]*---UCAGGCGCAUGUCCC 202757
                 ***999999999999985.444455555444444331223344555555533...........4.....9.....8.....555555555556666 PP

                      v              vvv                      NC
                 ))))))-))-))))))--))))))))--------~~~~~~~::: CS
  RF00216    148 CCaGcCAGCgGcCCGCAACCCuuGCCGCAUCCAC*[118]*CGC 302   
                 CC :C   : ::CC C  CC   :CCGC UCC C       CGC
     chr2 202756 CCUCCCCUUCCUCCUCCUCCUCCUCCGCUUCCUC*[ 12]*CGC 202708
                 6665555556677777778888899999998865....8..*** PP

RNAfold
>chr2_6
AUGGUCUCUACGUUGUAGCAGCAGCAGCAGCAGCAGCAGCAGUGGCGCUU
AUCGAGAGAGAAAAACAAAAAGCAAACAACGCAGCGCGUUGAAGAAACGA
GAGGAAGCGGAGGAGGAGGAGGAGGAAGGGGAGGGGGACAUGCGCCUGAG
CCUCCUUCGCUCUCUUCCCCUCCCUCCCUCCCUCCCCCCCCCGCCCCACU
UCCUCUCUCUCUCUCUCUCUGCGGCUGCAUGCUGAGAUGUGUGUUUGGCU
GUUGAUCUGGGGAGUAAGAGGGGUGGGGGUGGAAUUUCCUCGUGGGCCUG
AA
...(((.((.((((((.((.((....)).)).))))).).)).)))(((((.((((.((((...............((((((...)))))).........((((.((.((((((((.(((((((..((.((((((((.((......))..)))))))).)))))))))))).))))))).)))).((((((((((((......(((..((((((...((.((((((((((((......))))))..)))))).))...))))))..))))))))))))).))..)))))))))))))..... (-129.40)

Length sequence

: 302

Length match:

129