chr13_2

cmsearch-Rfam

Family :

IRES_Bip

Id:

RF00223

Type:

Cis-reg; IRES;

Taxonomy:

Eukaryota;

Ontology:

GO:0043022 ribosome binding

Description:

This family represents the bip internal ribosome entry site (IRES). BiP protein expression has been found
to be significantly enhanced by the heat shock response due to IRES-dependent translation. It is
thought that this translational mechanism is essential for the survival of cells under stress [1].

Score:

20.2

E-value:

0.0064

From sequence:

535416

To sequence:

535531

Alignments:

                     v                                                v             NC
                 :::((((((,,,,,~~~~~~~,,,,,,,,,,,,,,,,,,,,,,,,,,,,))))))::::::::::: CS
  RF00223      1 cgCcgGCcaAGACa*[204]*cUgGCuGGCAAGAUGAAGCUCUCCcUGGugGCcgCGaUGCUGCUG 263   
                 +GC: GC::AG C+       C GGCU GCA   UGAA + CUCC U G::GC :CG+ GCUGCUG
    chr13 535416 UGCUUGCGGAGUCU*[ 57]*CGGGCUUGCACAGUGAACUGCUCCGUCGUCGCCGCGGAGCUGCUG 535531
                 **************....8..578999999*9********************************** PP

>>

RNAfold
>chr13_2
UGCGCCGCGACUGCCGUGAGAAGGGCGGGAAGUUCAUCGAGUUCCGCUUC
CUCGGCCACGGCAAAGGAUGCGUUGCUUGCGGAGUCUGACAGGUCGCUAU
GCUCCAGCAACUCUUUUAGGUGUAGCAGAGAUUCGCGAAGGUGGCGGGCU
UGCACAGUGAACUGCUCCGUCGUCGCCGCGGAGCUGCUGCUGCUGCUGUU
CGGGACACUGUGCGGCUUCACAGUCACCGACGGCCUCUCUUCGUGUUGCA
AGCACACGGGAAG
((((.((((((((((.(....).)))))....(((..(((((..(((.((((..((....))..)))).)))..)))))..)))(((((.((((.(((.......))).)).)).))))).(((((((((.((((((..((((((((((..............)).))))))))..)))))).)).))))))).(((((.(((...((((((......))))))..))))))))......))))).))))............. (-97.40)

Length sequence

: 263

Length match:

114