Fig. 3

Characteristics of variable and non-variable HpaII sites. a genomic distribution of variable and non-variable HpaII sites; genic regions were defined as being within 2 kb up or downstream, respectively of transcriptional start (TSS) and termination sites (TTS) annotated in maize B73 RefGen_V4; intergenic regions were defined as being more than 2 kb up or down-stream, respectively of TSS and TTS; b levels of CG and CHG methylation of variable (v) and non-variable (n) HpaII sites located within genic (G) and intergenic (IG) regions (light grey and no shading, respectively); the Y-axis indicates methylation levels between 0 and 1 (0 and 100% methylation, respectively) derived from WGBS of B73 (B) and Mo17 (M) leaf tissue [32]; c illustrative examples of CG and CHG methylation levels of genomic regions located 10 kb up- and downstream of non-variable and variable HpaII sites located either within genic (n5 and v85) or intergenic (n19 and v55) regions; arrowheads indicate positions of variable and non-variable HpaII sites