Hi,

As far as I understand, in PAR regions, a SNP can be on X or Y. For example rs700455. It's shown on chromosome Y on dbSNP, and shown on chromosome X on Ensembl. In dbSNP VCF, it's shown in both X and Y.

If all information we have is that genotype in rs700455 is TC, how can we represent this in a VCF? Show on both X and Y?

Thanks a lot!