Comparative analysis identifies exonic splicing regulatory sequences--The complex definition of enhancers and silencers.
paper
Cited
Public
Unavailable
- Authors
- Goren, Amir; Ram, Oren; Amit, Maayan; Keren, Hadas; Lev-Maor, Galit; Vig, Ida; Pupko, Tal; Ast, Gil
- Year
- 2006
- Journal
- Molecular cell
- PMID
- 16793546
- DOI
- 10.1016/j.molcel.2006.05.008
Exonic splicing regulatory sequences (ESRs) are cis-acting factor binding sites that regulate constitutive and alternative splicing. A computational method based on the conservation level of wobble positions and the overabundance of sequence motifs between 46,103 human and mouse orthologous exons was developed, identifying 285 putative ESRs. Alternatively spliced exons that are either short in length or contain weak splice sites show the highest conservation level of those ESRs, especially toward the edges of exons. ESRs that are abundant in those subgroups show a different distribution between constitutively and alternatively spliced exons. Representatives of these ESRs and two SR protein binding sites were shown, experimentally, to display variable regulatory effects on alternative splicing, depending on their relative locations in the exon. This finding signifies the delicate positional effect of ESRs on alternative splicing regulation.
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| Towards realistic codon models: among site variability and dependency of synonymous and non-synonymous rates. | Mayrose I et al. | β | 2007 | β |
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| Widespread mRNA polyadenylation events in introns indicate dynamic interplay between polyadenylation and splicing. | Tian B et al. | β | 2007 | β |
| An RNA map predicting Nova-dependent splicing regulation. | Ule J et al. | β | 2006 | β |
| Identification of hnRNPs K, L and A2/B1 as candidate proteins involved in the nutritional regulation of mRNA splicing. | Griffith BN et al. | β | 2006 | β |
| Inference of splicing regulatory activities by sequence neighborhood analysis. | Stadler MB et al. | β | 2006 | β |
| In silico and in vivo splicing analysis of MLH1 and MSH2 missense mutations shows exon- and tissue-specific effects. | Lastella P et al. | β | 2006 | β |
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| Unweaving the meanings of messenger RNA sequences. | GuigΓ³ R et al. | β | 2006 | β |