The nucleic acid data:
IRESite Id: 223 Version: 3
Originaly submitted by: Václav Vopálenský
Reviewed by: Martin Mokrejš Last change: 2006-08-04 00:00:00
IRESite record type:
  natural_transcript
The shape of the nucleic acid molecule translated:
  linear
The quality of the mRNA/+RNA sequence:
  our_best_guess
The abbreviated name of the virus/gene coding for this mRNA/+RNA molecule:
  Utrn
The genetic origin of this natural mRNA/+RNA:
  nuclear
The GenBankId GI:# number of the most similar mRNA/+RNA sequence to this one.
110431377 
Synonyms of the gene name:
Synonym: DRP
Synonym: Dmdl
Synonym: AA589569
The mRNA/+RNA description: 
Mus musculus utrophin (Utrn), mRNA.
The mRNA/+RNA sequence represented in the +DNA notation:


Credibility of mRNA sequence:
  only_fragment_published_or_from_author_and_the_rest_is_a_guess
The organism containing this mRNA with IRES segment in its genome:
Mus musculus MEF (C57BL/6) [MEF-BL/6-1] (ATCC SCRC-1008)
A promoter reported in cDNA corresponding to IRES sequence:
  no
The total number of notable open-reading frames (ORFs):
  1
Summary of possible issues when IRES cDNA is experimentally transcribed in vivo:
Summary of experiments studying integrity of the in vivo transcripts in a particular host:
Integrity (uniformity) of mRNA tested using Northern-blot:
homogeneous_population_of_molecules_confirmed
Integrity (uniformity) of mRNA tested using RNase protection:
not_tested
Integrity (uniformity) of mRNA tested using 5'-RACE:
not_tested
Integrity (uniformity) of mRNA tested using primer extension :
not_tested
Integrity (uniformity) of mRNA tested using RT-PCR:
homogeneous_population_of_molecules_confirmed
Integrity (uniformity) of mRNA tested using real-time quantitative polymerase chain reaction (rtqPCR):
not_tested
Integrity (uniformity) of mRNA tested using RNAi:
not_tested
Integrity (uniformity) of mRNA tested using S1 nuclease mapping:
not_tested
Cryptic promoter presence was confirmed by expression from a promoter-less plasmid:
no_promoter_confirmed
Cryptic promoter presence was confirmed in an experimental setup involving inducible promoter:
not_tested
Integrity (uniformity) of mRNA molecules or possible promoter presence expressed in vivo was tested using another method, please specify in Remarks:
not_tested
The organism used:
Mus musculus C2C12
Notable Open-Reading Frames (ORFs; protein coding regions) in the mRNA/+RNA sequence:
ORF
ORF position:   1
Version: 4 Last change: 2006-08-04 00:00:00
Originaly submitted by: Václav Vopálenský Reviewed by: Martin Mokrejš
The abbreviated name of this ORF/gene:
Utrn
The description of the protein encoded in this ORF:
utrophin
The translational frameshift (ribosome slippage) involved:
  0
The ribosome read-through involved:
  no
The alternative forms of this protein occur by the alternative initiation of translation:
  no
The ORF absolute position (the base range includes START and STOP codons or their equivalents):
  507-10799
OPTIONAL: The function of the encoded protein
G-utrophin
GO:0030054;  Cellular component: cell junction (inferred from direct assay).
GO:0005856;  Cellular component: cytoskeleton (inferred from reviewed computational analysis).
GO:0005624;  Cellular component: membrane fraction (inferred from reviewed computational analysis).
GO:0045202;  Cellular component: synapse (inferred from direct assay).
GO:0003779;  Molecular function: actin binding (inferred from reviewed computational analysis).
GO:0005509;  Molecular function: calcium ion binding (inferred from reviewed computational analysis).
GO:0005515;  Molecular function: protein binding (inferred from physical interaction).
GO:0005198;  Molecular function: structural molecule activity (inferred from reviewed computational analysis).
GO:0004888;  Molecular function: transmembrane receptor activity (inferred from reviewed computational
analysis). GO:0007527;  Biological process: adult somatic muscle development (traceable author statement).
GO:0006935;  Biological process: chemotaxis (inferred from reviewed computational analysis).
GO:0006936;  Biological process: muscle contraction (inferred from reviewed computational analysis).
GO:0007517;  Biological process: muscle development (inferred from reviewed computational analysis).
GO:0007165;  Biological process: signal transduction (inferred from reviewed computational analysis).
Citations:
Miura P., Thompson J., Chakkalakal J. V., Holcik M., Jasmin B. J. (2005) The utrophin A 5'-untranslated region confers internal ribosome entry site-mediated translational control during regeneration of skeletal muscle fibers. J. Biol. Chem. 280(38):32997-33005
IRESs:
IRES:
Version: 4 Last change: 2007-01-24 00:00:00
Originaly submitted by: Václav Vopálenský Reviewed by: Martin Mokrejš
The IRES name:
  UtrA
Warning: please make ires_name same as the gene_name and optionally append to it coordinates. E.g. when gene/virus name is EMCV-R use EMCV-R_-222_to_-1 or EMCV-R_1-456, etc. but not Emcv-R-... or EMCV-222_to_-1. Please keep case of letters as well. This rewards when searching through the database.
The IRES absolute position (the range includes START and STOP codons or their equivalents):
  1-506
Conclusion:
  putative_IRES
How IRES boundaries were determined:
experimentally_determined
The sequence of IRES region aligned to its secondary structure (if available):


Remarks:
Whole 5'-UTR region was tested.
Citations:
Miura P., Thompson J., Chakkalakal J. V., Holcik M., Jasmin B. J. (2005) The utrophin A 5'-untranslated region confers internal ribosome entry site-mediated translational control during regeneration of skeletal muscle fibers. J. Biol. Chem. 280(38):32997-33005
Last change to the database: 2015-04-16 16:45:23 GMT+1