Finding splicing SNPs

There is no specific tool for finding splicing variants at this time. Many SNPs that cause a change in splicing are near to a coding exon. We will be looking for SNPs within 5 bases of a coding exon but not within the exon itself. First step is to get the coding exons. As you may have noticed we can do that with the Table Browser but since we already have a gene dataset in our history we will use the Gene BED to Exon tool (red arrow) in the section Extract Features. Choose to extract the Coding Exons only and our dataset of RefSeq genes. Click the Execute button.