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Figure 2 | BMC Biology

Figure 2

From: The recently identified modifier of murine metastable epialleles, Rearranged L-Myc Fusion, is involved in maintaining epigenetic marks at CpG island shores and enhancers

Figure 2

Rlf-DMRs overlap with regulatory regions. (A) E14.5 liver Rlf-DMRs were investigated for overlap with RefSeq genes, proximity to TSS and CpG islands. (B) E14.5 liver Rlf-DMRs overlapping RefSeq transcripts, were classified according to overlap with transcript features. The central CpG dinucleotide of each Rlf-DMR was used to define the overlap. Rlf-DMRs that overlapped multiple features were assigned to a single feature according to following ranking: TSS > single exon transcripts > 3′ exon/untranslated region (UTR) > internal exon > intron. The expected distribution was defined as the union of each feature category genome-wide, subtracting overlapping features of higher rank (1,006 Mb). (C) Counts of E14.5 liver Rlf-DMRs enriched for the histone marks H3K4me1, H3K4me3 and H3K27ac in E14.5 liver (obtained from ENCODE) (D) Heat plots showing DNA methylation and H3K4me3 levels surrounding E14.5 liver Rlf-DMRs. (E) Plot showing position of E14.5 liver Rlf-DMRs relative to CpG Islands for Rlf-DMRs located within 5 kb of a CpG island. The data has been plotted around the centre of the CpG island and sorted according to the methylation level of the CpG island. (F) An example of region of DNA at a Rlf-DMR that has been shown to have enhancer properties in neural tube and forebrain of E11.5 embryos [9]. (G) Bisulphite PCR validation of the E14.5 liver Rlf-DMR located between Smad3 and Smad6.

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BMC Biology

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