Fig. 1

Examples of knock-in alleles generated and their genotyping. a Simple transgene insertions (CAGG-LoxP-STOP-LoxP-cDNA knock-in), b simple 3′ UTR knock-in of a fluorescent reporter, c simple functional cassette knock-in and d LoxP flanked conditional allele. 5′ and 3′ long range (5′ LR and 3′ LR) are designed such that one primer is specific to regions external to the homology, while the second primer is specific to the intended inserted cassette. qPCR genotyping assays included loss of allele (LOA) designed against the wild-type allele; copy number variation (CNV) qPCR is designed against the insert and to the rAAV inverted terminal repeats