50 best Alternative Splice Sites

Alternative Splice Sites

How is alternative splicing predicted in ASSP?

Splice site prediction. ASSP predicts putative alternative exon isoform, cryptic, and constitutive splice sites of internal (coding) exons. Skipped splice sites are not differentiated from constitutive sites. Non-canonical splice sites are not detected. Alternative splicing is predicted based on the DNA/RNA sequence information only.

What is the alternative acceptor site for splicing?

Alternative acceptor site: An alternative 3' splice junction (acceptor site) is used, changing the 5' boundary of the downstream exon. Intron retention: A sequence may be spliced out as an intron or simply retained. This is distinguished from exon skipping because the retained sequence is not flanked by introns.

Are skipped splice sites differentiated from constitutive and non-canonical sites?

Skipped splice sites are not differentiated from constitutive sites. Non-canonical splice sites are not detected. Alternative splicing is predicted based on the DNA/RNA sequence information only.

How to prevent false splice sites from being detected?

By increasing the cutoff level of these matrices you may prevent false splice sites to be detected as putative alternative isoform or cryptic sites. However, high stringency matrices (high cutoff) will not detect weak alternative isoform or cryptic splice sites.

Alternative Splice Sites

Similar Posts

Leave a Reply

Your email address will not be published. Required fields are marked *