Use PacBio's iso-seq data to look for variant
I am trying to identify A to I RNA modification in human genome. I have a list of potential modification sites identified by Illumina RNA-seq. I hope to find, for a certain gene with x modification sites identified by Illumina, how many modification sites can be found in the transcripts mapped to the gene (by PacBio). Like below, there are 3 modifications identified by Illumina data, how can I find the modification in each transcript in PacBio data?
ref: ATTGAATCGTAG
Illumina: GTTGGGTCGTAG
PacBio: transcript1. GTTGAATCGTAG transcript2. ATTGGATCGTAG transcript3. ATTGGGTCGTAG
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