Fig. 3

Dynamic genic CGs are rare but shared among RILs. a Summary of the fraction of CG sites in genes in each RIL that have gained or lost methylation relative to the parent line, by genotype in the RIL. Note that the y-axis begins at 90%. b Intersection of dynamic genic cytosines identified in RILs 8 and 124, by genotype. c Examples of each of the six classification categories based on methylation across 927 A. thaliana strains. Each panel represents data for an individual CG and shows the proportion of strains with methylation levels at that CG in each of the five bins indicated. d Percentage of cytosines classified into each of the six categories shown in c for different groups of CGs from Col-derived regions in RIL 8. The left panel compares distribution at CG sites where the RIL has gained methylation relative to the parent line (RIL gain sites) to CG sites where the parent line had sufficiently low methylation to enable gain of methylation in the RIL (all potential RIL gain sites). The right panel compares CG sites where the RIL has lost methylation (RIL loss sites) to CG sites where the parent line had sufficient methylation to be lost (all potential RIL loss sites)