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. Author manuscript; available in PMC: 2023 Nov 17.
Published in final edited form as: Mol Cell. 2022 Oct 28;82(22):4232–4245.e11. doi: 10.1016/j.molcel.2022.10.004

Figure 2. Acute loss of INTS11 increases nascent RNA production near TSSs.

Figure 2.

(A) Metagene analysis of PRO-seq signal for active annotated genes over 400 nt in length (N=16,036, does not include snRNAs) after 4 h of indicated treatment. Data outside gene bodies are shown as average reads per gene in 50 nt bins; bins within gene bodies are scaled to gene length, with 90 bins/gene.

(B) Heatmap representation of difference in PRO-seq signal after PROTAC treatment (Δ = PROTAC - DMSO) for genes shown in A. Genes are ranked by the fold change in PRO-seq signal from TSS (arrow) to TES (red octagon). Signal across gene bodies is shown in 90 bins, while 1 kb upstream and downstream regions are shown in 200 nt bins.

(C) Metagene analysis of INTS11 ChIP-seq signal for active annotated genes. Data outside gene bodies are shown as average reads per gene in 50 bp bins; bins within gene bodies are scaled to gene length, with 100 bins/gene.

(D) Readthrough Index (RI) was calculated from TT-seq data as indicated. Heatmaps depict normalized TT-seq signals in DMSO and PROTAC treated cells (left and middle) or relative difference (right) in 100 nt bins for mRNA genes with no significant differences in TT-seq signal in the 2kb window upstream of the TES (N=7,560). Genes with increased RI in INTS11-depleted cells are at the top.