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. 2023 May 22;14:2922. doi: 10.1038/s41467-023-38528-z

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 6 — a Bar plots represent the average CG methylation level of Exe and Epi measured by WGBS in four groups (control, Dnmt1-KO, Dnmt3a/3b-DKO, and Dnmt-null embryos). Data are mean ± s.e.m of three biological replicates. b Venn diagrams show overlapped hypermethylated retrotransposons, enhancers, and promoters between Dnmt1-KO vs Dnmt-null and Dnmt3a/3b-DKO vs Dnmt-null in Exe and Epi of E6.5 and E7.5. c Average DNA methylation levels in the gene body and an additional 2kb flanking regions in four genotypes of Exe and Epi at E6.5 and E7.5. TSS, transcription start site; TES, transcription end site. d Box plots show promoter methylation levels of overlapped hypermethylated promoters (HMPs) and non-HMPs in embryos with different mutants. HMPs are overlapped HMPs shown in (b); Non-HMPs are other promoters besides the HMPs. The central lines are the median of data. The lower and upper hinges correspond to the 25th and 75th percentiles. The end of the lower and upper whiskers are 1.5 * IQR (inter-quartile range). Data beyond the end of the whiskers are plotted as outliers. e Bar plots show the composition of genes related to overlapped HMPs in Exe and Epi at E6.5 and E7.5 shown in (b). n, the number of overlapped HMPs. Source data are provided as a Source Data file.