What fluorophores are used for SNP Type Genotyping? How do I know which fluorophore represents which allele?
SNP Type Genotyping Assay probes are labeled with the FAM and HEX fluorophores. Allele-Specific Primer 1 (ASP1) yields a FAM-labeled, allele-specific amplicon, and Allele-Specific Primer 2 (ASP2) yields a HEX-labeled, allele-specific amplicon. SNP alleles and corresponding allele-specific primer sequences and fluorophores are provided by Fluidigm in a SNP Type Assay design file.