chr10_1

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:

20.1

E-value:

0.0072

From sequence:

471151

To sequence:

471297

Alignments:

                                                                                                                  NC
                 :::((((((,,,,,~~~~~~~~~~~~~,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,.,,,,))))) CS
  RF00223      1 cgCcgGCcaAGACa*[154]**[15]*GAcUgCcUGcaacguugugcguuucUgcUGcCCaacUgGCuGGCAAGAUGAAGCUCUCC.cUGGugGCc 251   
                 CG ::GCCA GA A                                   UUC G   CC      G UGGCAAG UGA G  CUCC CUGGUGGC:
    chr10 471151 CGUUCGCCAGGAAA*[ 32]**[40]*--------------------ACUUCAGGCACCGGUGGCGGUGGCAAGGUGACGGGCUCCuCUGGUGGCG 471285
                 *************9....9.....7......................333445666677777788889***********999987538******** PP

                              NC
                 )::::::::::: CS
  RF00223    252 gCGaUGCUGCUG 263   
                 :CG+ GCUG  G
    chr10 471286 GCGGCGCUGGCG 471297
                 ************ PP

RNAfold
>chr10_1
CAGGCCAGUCCGUUGGGCACGCGUAGCAGUUGUCGUUGUUUGCCACUAGG
UGGGCCACGUUCGCCAGGAAACUCUUCAGCGGCGGCACAAACGGGGUGGC
CGACGGGUUGGGGCUGUACACCGUCUUGUGCUGCACCGCACUGACUUCAG
GCACCGGUGGCGGUGGCAAGGUGACGGGCUCCUCUGGUGGCGGCGGCGCU
GGCGCAGCUUGACGAGUUGUGCCACGACCCACUGUGGCUGUGGUUGCUGC
CGCAGUGGUGGC
..((((((.(((((((((..((((..((((.(((((....((((((((((.(((((.(((.((((..(((....))).((((((((((((((((.((((((..........))))..)).)))).)))))))))..))).(((....))).(((((....)))))....)))))))))))).))))))))))))))))))))))).)))))))).)))).))).(.(((.((((((((.((....)).))))))))))).). (-124.80)

Length sequence

: 262

Length match:

145