Identification of methylation-dependent regulatory elements for intergenic miRNAs in human H4 cells

► DNA methylation is associated with gene regulation. ► The differentially methylated regions (DMRs) were identified within 1000 bp upstream of intergenic miRNA. ► C[N]6CT pattern is frequently occurred in DMRs. ► The C[N]6CT sequence pattern in DMRs is a methylation-dependent regulatory motif for intergenic miRNA expression. ► C[N]6CT motifs in DMRs are likely to be an important site for intergenic miRNA regulation or recognition.