Figure S8. Analysis of the Cx3cl1 project. PCR amplification of the genomic region of interest with (a) Cx3cl1-F1 and Cx3cl1-R1 primers (1483-bp amplicon) and (b) LoxPF and LoxPR primers (835-bp amplicon) from biopsies taken from the F0 animals. (c) The panels show the sequencing of PCR amplicon obtained from animal Cx3cl1-10 with Cx3cl1-F1 and Cx3cl1-R1. LoxP sequences are highlighted in blue. (d) The table details the F0 animals obtained. The ID and outcome of PCR analysis of the region of interest, as well as the conclusion for each individual are shown. Three founders are mated for cKO allele transmission (LoxP PCR positive and sequence of complex mosaic). PCR amplification of region of interest with (e) Cx3cl1-F1 and Cx3cl1-R1 primers (1483-bp amplicon) and LoxPF and LoxPR primers (835-bp amplicon) from biopsies taken from Cx3cl1-10’s offspring. (f) The table details the first litter obtained by mating Cx3cl1-10 with a WT mouse. The ID, outcome of sequencing the region of interest, copy counting of the region of interest and the conclusion for each individual are shown. (g) The panel shows an alignment of the sequencing data obtained from Cx3cl1-10.1a. Blue 5′homology arm; orange universal sequences for diagnostics; green critical region with exon in capitals; red loxP sites; grey 3′homology arm. (a, b, e) Animal IDs are shown. + is positive control amplified from an unrelated (a) WT, (b) conditional floxed animal. L1 = 1 kb DNA molecular weight ladder (thick band is 3 kb). Sequencing data showing examples of illegitimately repaired conditional alleles are shown in Additional file 3: Figure S2o and p. (PNG 1075 kb)