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Schematic diagram of the assay for AAV site-specific integration. Rep mediates the formation of specific junctions between the linear AAV substrate and the circular substrate containing the preintegration locus AAVS1. The AAV–AAVS1 junctions are detected by PCR with specific primers for the AAV (BAAV4) and the AAVS1 (H5d) sequences. Depending on the position of the crossover points (wavy line), the length of the amplified fragments was expected to vary between 650 and 750 bp.
