Exploring a SNP in Atlantic salmon
The missense variant 25:3426821:C_A:PRJEB34225 is found in the Atlantic salmon hs6st2 gene.
(a) Find the page with information for 25:3426821:C_A:PRJEB34225.
(b) Is 25:3426821:C_A:PRJEB34225 a missense variation in all transcripts of the hs6st2 gene?
(c) What is the major allele in 25:3426821:C_A:PRJEB34225?
(a) Please note there is more than one way to get this answer. Either go to the Variant Table for the Atlantic salmon hs6st2 gene, and filter variants to the missense variants, or search Ensembl for 25:3426821:C_A:PRJEB34225 directly.
(b) Once you’re in the Variation tab, click on the Genes and regulation link or icon.
This SNP is found in four transcripts from two genes. It is a missense variant in hs6st2 gene and an intron variant, and downstream gene variant in ENSSSAG00000118991.
(c) Select Population genetics from the side menu.
From the Frequency data table, the PRJEB34225 allele frequencies shows that C is the major allele (95% of all population) compared to A (5% of all population).
