Transcript_22

cmscan-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:

18.6

E-value:

0.0018

From sequence:

715

To sequence:

665

Alignments:

                                                                               NC
                    :::((((((,.,,,,~~~~~~~,,,,,,,,,,,,,,,,,,,))))))::::::::::: CS
        RF00223   1 cgCcgGCcaA.GACa*[213]*AAGAUGAAGCUCUCCcUGGugGCcgCGaUGCUGCUG 263
                    C C::GCCAA GACA       AAGAUG  G  C  CCUGGUGGC:: G UG UGC G
  Transcript_22 715 CCCUUGCCAAuGACA*[  0]*AAGAUGUUGGACAGCCUGGUGGCAAAGCUGUUGCCG 665
                    ********9549999.......79999999999************************* PP

RNAfold
>Transcript_22
CCUGUGCAUGGUGACAGGCGGUGCCAACUUGGGGCGUAUUGGCGUUAUCA
CCAACCGGGAGCGGCACCCCGGGUCCUUUGACGUGGUGCACGUGAAGGAC
AGCACCGGCAACAGCUUUGCCACCAGGCUGUCCAACAUCUUUGUCAUUGG
CAAGGGCAACAAGCCGUGGGUGUCCCUCCCCAGGGGCAAGGGCAUCCGGC
UGACGAUUGCCGAAGAGAGGGACAAGAGGCUAGCGGCCAAGCAGAGCAGC
GGCUAAGCGUGG
.(..(((.((((....(.((((((.....(((((.....((.((((....((....)).)))).))))))).(((((((.(((((...)))))))))))).)))))).)....(((((((.....((((((((....(((((.((.(((((((.(....).((((..((((((((.(((....)))...)))))))))))).....))))))).)).))))).....))...))))))..)))))))....)))).)))..) (-108.00)

Length sequence

: 262

Length match:

49