Distribution of transcription elongation complex in the PTPRN2 gene

Analysis of RNA polymerase II (RNAP II) binding data in HCT116-C52-tTA cells provides insight into the stalling site of RNAP II in the human PTPRN2 gene. Overall design: We established a stable HCT116 cell line, HCT116-C52, in which a tetracycline (tet)-repressible promoter was integrated into the second intron of the PTPRN2 gene by homologous recombination. An EGFP-tagged tTA (EGFP-tTA) expression cassette was then introduced into the HCT116-C52 cells by virus transduction to generate HCT116-C52-tTA cells. RNAP II binding sites in HCT116-C52-tTA cells were determined by RNAP II ChIP-seq, using an antibody targeting the YSPTSPS repeats in the C-terminal domain (CTD) of the largest subunit of RNAP II.