A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers (original) (raw)
Figure 2
Inducible upstream extragenic transcription frequently precedes the activation of the adjacent protein-coding gene.
Kinetics of induction of Ccl5 (A) and Cxcl11 (B) mRNAs relative to those of the upstream extragenic transcripts. Extragenic Ccl5 transcripts (#−1, −2, and −3) correspond to the Pol_II peaks shown in Figure 1. Cxcl11 transcripts #−1 and #−2 correspond to the regions in Figure S1A. Cells were stimulated with LPS+γIFN as indicated. _y_-axes indicate mRNA (left) or ncRNA (right) levels relative to those of a housekeeping gene (TBP). (C) Kinetics of mRNA induction of a panel of protein-coding genes together with the associated extragenic transcripts. The corresponding Pol_II ChIP_seq data (2h LPS+γIFN stimulation) are shown on the right. Shaded areas indicate the extragenic Pol_II peaks. For Trim25 and Zcchc2, amplicons correspond to the Pol_II peak closest to the 5′ of the gene.