Fig. 5

The influence of H3K9me3 on transcription. a Diagram of targeted positions by the EpiGo-KRAB system, which includes promoter, gene body (5′-UTR, exon, intron, 3′-UTR), and intergenic region. There are 98 copies of C19Q repeats on promoters, 158 copies on intergenic regions, and 753 copies on gene bodies. b RNA levels in EpiGo-Control (dCas9) and EpiGo-KRAB (dCas9-KRAB) cell lines. RNA-seq was performed in these two cell lines. Region 1 (chr19: 48,800,000–51,200,000) or region 2 (chr19: 51,200,001–52,300,000) of C19Q-1 with different transcriptional states was highlighted with cyan or pink respectively. c Histogram shown active, modestly active, and inactive genes in region 1 and region 2 in EpiGo-Control (dCas9) and EpiGo-KRAB (dCas9-KRAB) cell lines. Active genes were defined by applying a threshold of FPKM ≥ 5, modestly active genes were applied a threshold of 1 < FPKM < 5, and inactive genes were used a threshold of FPKM ≤ 1. d Global expression level in EpiGo-Control (dCas9) and EpiGo-KRAB (dCas9-KRAB) cell lines. e ChIP-seq of H3K9me3, H3K4me3, H3K27ac, and RNA-seq were performed in EpiGo-Control (dCas9) and EpiGo-KRAB (dCas9-KRAB) cell lines. KCNN4, HSD17B14, TNNT1 genes and KDELR1, KLK6 genes were highlighted with light orange or cyan respectively. All genes were marked location in C19Q repeats with red lines