Hi to all,
does anybody know if in a standard exome sequencing project they obtain also data about splice junctions?
Re: Exome sequencing
Do you mean "Do you get sequence at the exon boundaries in exome sequencing?"
If so, then yes. The baits designed to perform the in solution capture extend beyond the exons they are designed to capture so you get a bit of sequence either side of each exon.
You generally refer to sequence as 'on target' (exon data) 'off target but on bait' (intron data from the exon boundaries that you expect to pick up) and 'off bait' (random bits of DNA that have been captured that you wouldn't have expected to get).
If you mean "Can I get information about splice variants from an exome project?" the answer is no, but you could get this information from an RNA-Seq experiment.
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