gi_545778205_gb_U000_77

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:

23.6

E-value:

9.6e-05

From sequence:

1472215

To sequence:

1472295

Alignments:

                                                                                                                 NC
                               :::((((((,,,,,~~~~~~~~~~~~~,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, CS
               RF00223       1 cgCcgGCcaAGACa*[154]**[15]*GAcUgCcUGcaacguugugcguuucUgcUGcCCaacUgGCuGGCAAGAUGAAGC 237    
                               C  ::GCC: GA A                           + ++GC + U U +UGCCCA    G +GGCA  AUGAA  
  gi_545778205_gb_U000 1472215 CCAGUGCCGUGAAA*[  3]**[ 3]*--------------CACAGCAACUUUAUUGCCCAGAAUGACGGCAUCAUGAACA 1472274
                               **************....8.....5................556777888899*************************988 PP

                                                          NC
                               ,,,,,,,,,))))))::::::::::: CS
               RF00223     238 UCUCCcUGGugGCcgCGaUGCUGCUG 263    
                               UC      G:GGC::CG+UGCUG  G
  gi_545778205_gb_U000 1472275 UCA-----GCGGCACCGGUGCUGUGG 1472295
                               875.....****************** PP

RNAfold
>gi_545778205_gb_U000_77
CACUGGUAGUCAGCGCUAAUAAUGCCGGCGAUCAGAAUGCCUUCUUCUGG
AACCAGGAUAACGGGGUCAUCAACUUCGAUCACGACAGCGCCAGUGCCGU
GAAAGUCACCCACAGCAACUUUAUUGCCCAGAAUGACGGCAUCAUGAACA
UCAGCGGCACCGGUGCUGUGGCUAUGGAAGGUGAUAAGAACGCGCAGCUG
GUUAACAAUGGCACCAUCAACCUCGGUACCGCAGGCACUACUGACACGGG
UAUGAUCGGUAU
..(((((.(((.(((.......))).))).)))))..((((.........((((((.....((.(.((((((.((((.((..(.((((((((.(((((((....((((......((((.....))))......))))................))))))).)))))))).)..)).)))).))))..)).).))...))))))......))))(((((((((.((((....(((......))))).))))).)))).))... (-81.20)

Length sequence

: 262

Length match:

79