Fig. 3

a Overall distribution of sequencing reads of DNA methylation in three different gene regions of 1X, 2X, and 3X. Green, red and yellow boxes are representing intergenic, intragenic and promoter region respectively. b GO functional classification of differentially expressed methylated genes in promoter regions of haploid, diploid, and triploid seedlings. Purple, red and green bars are representing categories of biological process, molecular function, and cellular components respectively. c The negative correlation between promoter DNA methylation and gene expression of 1X, 2X, and 3X d Analyses of relative gene expression and promoter region methylation levels in nine comparison groups for haploid, diploid, and triploid rice seedlings. Left and right pie graph are representing gene body expression and promoter methylation respectively. e The relationship between gene expression and promoter DNA methylation levels in nine comparison groups