Alternative splicing in gencode annotations
Hi there,
I don't quite understand how alternative splicing looks like in a gencode annotation. Is it each transcript? or just the transcripts of type "retained_intron" or "disrupted_domain"? or should I be looking at the positions for each annotated gene? or maybe I should look at the exon numbers? maybe something else?
I hope someone can help me understand this.
Julian
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Kristoffer Vitting-Seerup
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Julian.dekker •
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It is in the comparison of transcripts. When you compare two transcripts you can see which splicing was needed to produce this transcript. Another approach is to compare a transcript with the hypothetical pre-mRNA you get by combining all exons (excluding retained introns).
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