I am working on SAGE-seq data of Ion Torrent. According to my knowledge, Tag in SAGE-seq is specific to Gene and not to the transcript.
So while doing SAGE-seq Tag mapping, what should I consider for Unique mapping of Tag, - Tag per GeneID or Tag per Transcript ?
So while doing SAGE-seq Tag mapping, what should I consider for Unique mapping of Tag, - Tag per GeneID or Tag per Transcript ?