Intronic gVCF

Question

[Giulia.cosenza]

Hi everyone, I'm looking for a VCF file with all the SNP of the hg19 but only from the intronic portions of the DNA. Does somebody know where I can find it? Or a table with the corresponding rs to all the hg19 variants position

Thank you

Answer 1

[iraun]

Maybe the easiest solution is to create a bed file with the genomic coordinates of the introns, and use a tool such as bedtools intersect (you can find it here) to extract only those variants from the VCF falling into the intronic regions.