I am planning to sequence 60kb gene using ovelapping long range PCR, I have designed primers and amplified whole gene. I am running into problem now because I am amplifying mixtures of sequences of another gene that is highly homologous (93%) to my gene.
When I sequence mixture of amplified population, will I will be able to characetrize SNPs specific to my gene by aligning to reference genome?
When I sequence mixture of amplified population, will I will be able to characetrize SNPs specific to my gene by aligning to reference genome?
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