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Yes, you can perform For pairedPaired-end Capital P and E? (PE) sequencing use using QuantSeq REV (Cat. No. 016). Please note QuantSeq REV requires a Custom Sequencing Primer (CSP) for Read 1 in order to generate reads that begin at the exact 3' end of the transcript.
We do not recommend paired-end PE sequencing for QuantSeq FWD (Cat. No. 015), as the quality of Read 2 would be very low due to the poly(T) stretch at the beginning of Read 2.