Distribution of CpG DNA methylation in the <i>Nasonia</i> genome across protein-coding genes.

<p>(A) Distributions across genomic features for all 14 million CpG sites (Top left), 8 million covered CpG sites (Top middle) and methylated CpG sites (mCpGs, Top right). Plotted in the bottom panel are the distributions for percentage of mCpGs and methylation percentage at covered CpG sites. (B) Percentage of mCpGs in the 1 kbp upstream, 1 kbp downstream, UTR and intronic regions for methylated (blue), non-methylated (red) and all genes (purple). (C) Percentage of mCpGs in introns for methylated (blue), non-methylated (red) and all genes (purple), binned by the nearest distance to the exon-intron junctions. (D) Percentage of mCpGs across exons for methylated (blue), non-methylated (red) and all genes (purple). (E) Percentage of mCpGs in the coding region starting from first codon for methylated (blue), non-methylated (red) and all genes (purple). (F) Methylation level in 1 kbp upstream, 1 kbp 5′-UTR, first 2 kbp coding, 1 kbp 3′-UTR and 1 kbp downstream regions for 1,540 expressed transposable element genes (TE genes) and 16,186 non-TE genes. Dark blue line: percentage of mCpGs for non-TE genes; light blue line: average methylation percentage across covered CpGs for non-TE genes; red line: percentage of mCpGs for TE genes. (G) Methylation level in 1 kbp upstream, 1 kbp 5′-UTR, first 2 kbp coding, 1 kbp 3′-UTR and 1 kbp downstream regions for 4,751 methylated non-TE genes and 12,975 non-methylated non-TE genes. Dark blue line: percentage of mCpGs for methylated genes; light blue line: average methylation percentage across covered CpGs for methylated genes; red line: percentage of mCpGs for non-methylated genes. (H–I) Plot of Percentage of methylated CpG sites in the 5′UTR, the first four exons and introns (H) and 3′UTR, the last four exons and introns (I) for methylated (blue) and non-methylated genes (red). All exons, introns and UTRs were rescaled to the same length.