Splice Junction & Intron Boundary Validation

[leannehaggerty]

This process evaluates whether annotated intron boundaries match canonical splice site motifs (e.g., GT-AG) and are supported by transcriptomic data (if available). It checks for non-canonical splice sites, potential intron retention events, and the consistency of intron lengths. It can also correlate known splicing patterns from reference annotations with the new pangenome annotation.