ClinVar - how can a missense coding variant in a gene also be a variant on a non coding antisense RNA gene?
Hi all,
I’ve been looking at some variants on ClinVar.
For example: https://www.ncbi.nlm.nih.gov/clinvar/variation/4075288/
I understand that the variant occurs in CACNA1C but ClinVar also states it has a transcript change in the long non coding antisense RNA CACNA1C-AS1 (also called ITFG2-AS1).
I can see on UCSC genome browser that these do overlap in genomic location & will be transcribed in opposite directions but it’s confusing me how both of these variants are reported in ClinVar as can antisense RNA really have transcripts affected by variants from coding genes?
Sorry if I’m not making much sense, it is confusing me!
Thanks!
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I should caveat this answer by saying this is not my field, but your question interested me so I had a quick look.
This is not an uncommon occurrence. See a couple of papers that describe this phenomenon: 1, and 2.