So some intergenic range that isn't hard to sequence and is nowhere near the periphery of a gene that would be on an exome kit.
So some intergenic range that isn't hard to sequence and is nowhere near the periphery of a gene that would be on an exome kit.
What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.
I don't really understand this question?
Any intron is going to get good relative coverage in WGS over WES... Anything over 5 kb (probably even 1 kb) away from a targeted exon will have 0 reads (in WES) - outside of background reads... so like avoid regions with transposon/repeat elements. If you want to go over the top best is probably an intron with high conservation.
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What would you want to do with such a region(s)?
use it to know if I was looking at wgs or wes
You could take BED regions from some of the common WES kits and then create a "superset" region file to subtract from the genome (and perhaps remove blacklisted regions as well).