Fig. 4: Tet3 inhibits aberrant intragenic initiation of transcription within highly expressed SMC genes.
From: Spurious transcription causing innate immune responses is prevented by 5-hydroxymethylcytosine
a, Venn diagram based on integrated analysis of ChIP–seq, RNA-seq and CAGE–seq datasets to identify spuriously transcribed genes. b, Transcriptional activity of spurious and nonspurious genes assessed by RNA-seq. P values was as calculated using the one-tailed likelihood-ratio test. c, CAGE–seq signals at canonical TSSs of spuriously and nonspuriously transcribed genes. d, KEGG pathway analysis of spuriously transcribed genes shown in a (n = 2 independent animals). P value was calculated with two-sided, Fisher’s exact test. e, Heatmap reflecting normalized counts transformed by z score from RNA-seq of sorted SMCs (n = 2 independent animals). Genes involved in cytoskeleton formation are shown. Genes related to contractile actin filament bundle and actomyosin structure organization are indicated. GO, gene ontology. f, Histogram of Tet3-deficiency-dependent enrichment of CpG-containing motifs in a region ± 50 nucleotides of intragenic TSSs (CAGE tag >8) in SMCs (n = 2 independent animals). P value was calculated using Pearson’s correlation coefficient test. g, IGV tracks displaying the first single nucleotide of CAGE–seq capture sequences (CAGE tag >8) and RNA-seq peaks, Nano-seal and H3K36me3 ChIP–seq signals in Acta2 and Myh11 genes. Bottom, schematic representation of CAGE-TSS, putative transcription factor binding sites and gene tracks views of Nano-seal, H3K36me3 ChIP–seq signals within genomic regions containing putative transcription factor binding sites.
