What is an alternative 5 splice site?

Alternative donor site: An alternative 5′ splice junction (donor site) is used, changing the 3′ boundary of the upstream exon. Alternative acceptor site: An alternative 3′ splice junction (acceptor site) is used, changing the 5′ boundary of the downstream exon.

What is alternative splice site?

Alternative splicing (AS) is a process by which exons can be either excluded or included in or from a pre-mRNA resulting in multiple mRNA isoforms.

What are 5 and 3 splice sites?

Introns are removed from primary transcripts by cleavage at conserved sequences called splice sites. These sites are found at the 5′ and 3′ ends of introns. Most commonly, the RNA sequence that is removed begins with the dinucleotide GU at its 5′ end, and ends with AG at its 3′ end.

How is alternative splicing predicted based on sequence information?

Alternative splicing is predicted based on the DNA/RNA sequence information only. For splice site prediction within a sequence putative splice sites are preprocessed using position specific score matrices.

Why are 5 ′ splice sites important to pre mRNA splicing?

Splice site selection is fundamental to pre-mRNA splicing and the expansion of genomic coding potential. 5′ Splice sites (5′ss) are the critical elements at the 5′ end of introns and are extremely diverse, as thousands of different sequences act as bona fide 5′ss in the human transcriptome.

Which is the consensus sequence for a splice site?

Splice Site Consensus(jump to matrices) It is well-established that nearly all splice sites conform to consensus sequences (matrices). These consensus sequences include nearly invariant dinucleotides at each end of the intron, GT at the 5′ end of the intron, and AG at the 3′ end of the intron.

How is ASSP used to predict alternative splice sites?

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.