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Subtle discrepancies of SF2/ASF ESE sequence motif among human tissues: A computational approach
- Source :
- Computational Biology and Chemistry, Computational Biology and Chemistry, Elsevier, 2010, 34 (3), pp.203-9. ⟨10.1016/j.compbiolchem.2010.06.005⟩
- Publication Year :
- 2010
- Publisher :
- HAL CCSD, 2010.
-
Abstract
- International audience; The intron removal during the pre-mRNA splicing in higher eukaryotes requires the accurate identification of the two splice sites at the ends of the exons, or exon definition. However, the consensus sequences at the splice sites provide insufficient information to distinguish true splice sites from the large number of the false ones that populate the primary transcripts. Additional information is provided by cis-acting regulatory sequences that serve to enhance or repress splicing, and that may be exonic or intronic in nature: the splicing enhancers and the splicing silencers, respectively. In this study, we tested by computational and statistical approaches if the exonic splicing enhancer motif binding to the SF2/ASF SR protein is conserved among several groups of human genes. The results showed that the SF2/ASF ESE consensus was conserved between genes within the same chromosome, within different chromosomes and between different levels of muscular cells differentiation. However, this motif displays subtle variations within the consensus sequence between genes expressed in different tissues. These results can emphasize the presence of different translational isoforms of the SFRS1 gene encoding for the SF2/ASF, or different post-translational protein maturations in different tissues. This tissular discrepancy can also account for the alternative splicing of several genes between tissues.
- Subjects :
- Amino Acid Motifs
Exonic splicing enhancer
MESH: RNA Splice Sites
Biology
Biochemistry
03 medical and health sciences
Exon
MESH: Amino Acid Motifs
0302 clinical medicine
SR protein
Structural Biology
Humans
Tissue Distribution
[SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology
MESH: Tissue Distribution
Conserved Sequence
030304 developmental biology
Genetics
0303 health sciences
Splice site mutation
MESH: Conserved Sequence
MESH: Humans
Serine-Arginine Splicing Factors
Organic Chemistry
Alternative splicing
Intron
Computational Biology
Nuclear Proteins
RNA-Binding Proteins
Computational Mathematics
Enhancer Elements, Genetic
MESH: RNA-Binding Proteins
030220 oncology & carcinogenesis
RNA splicing
RNA Splice Sites
MESH: Enhancer Elements, Genetic
Sequence motif
MESH: Nuclear Proteins
MESH: Computational Biology
Subjects
Details
- Language :
- English
- ISSN :
- 14769271
- Database :
- OpenAIRE
- Journal :
- Computational Biology and Chemistry, Computational Biology and Chemistry, Elsevier, 2010, 34 (3), pp.203-9. ⟨10.1016/j.compbiolchem.2010.06.005⟩
- Accession number :
- edsair.doi.dedup.....14d649f2e2df74a9405cd67d278453a5