Fig. 2
Transcribed enhancers represent a more active and conserved class of distal cis-regulatory elements. a Distribution of different histone modifications and the histone variant H2A.Z at transcribed enhancers, nontranscribed enhancers, promoter (proximal ATAC-seq peaks), and random sequences. b DNA methylation level (mC, weighted average) profiles around transcribed and nontranscribed enhancers. c Correlation between DNA methylation level (mC, weighted average) and chromatin accessibility of all transcribed enhancers is represented graphically by a scatterplot. d Distribution of the unmethylated regions (UMRs) in Arabidopsis genomic regions. The total number of UMRs and genome proportion of each part are shown. e Overlap of the total length of enhancers relative to UMRs. The percentage of enhancers overlapping with the UMRs was listed. I, transcribed enhancersA; II, nontranscribed enhancersA; III, transcribed enhancersD; IV, non-transcribed enhancersD. f Conversation analysis of transcribed and non-transcribed enhancers by PhastCons. g, h Mean count of conserved noncoding sequences (CNSs) (g) and single-nucleotide polymorphisms (SNPs) (h) per one hundred transcribed or non-transcribed enhancers. Significant differences among groups were analyzed using the one-tailed Student’s t test