Fig. 2

Visualization of Arabidopsis genomewide methylation analysis (A) PCA and (B) Hierarchical clustering showed a clear difference between met1 and wild-type (WT). C The average methylation level in two genotypes in 3 contexts (CG, CHG, CHH). D The CG methylation level in genome-wide view. E Metagene plot of Δ CG methylation levels in met1. F The summary of DMR and DMG numbers. G DMRs enriched in IGR. The CHG (H) and CHH (I) methylation level of cmt2 cmt3 double mutant and wild-type in genome-wide view. TSS transcription start site, TES transcription end site, 5′UTR 5′ untranslated region, CDS coding sequence, 3’UTR 3′ untranslated region