Fig. S1.

ICP27 causes aberrant mRNA processing in a small fraction of cellular genes. The 293 cells were transfected with an HSV-2 ICP27 expression vector (ICP27) or a control pFlag vector (control). High-throughput RNA-seq was performed by using poly(A)-enriched mRNA from the transfected cells. (A) Scatter plots of log₁₀(fpkm) for ∼45,000 known genes expressed in cells transfected with pICP27 (ICP27) vs. cells transfected with vector control (control). (B) Aberrant mRNA processing was identified in only a very small number of genes. Approximately 2% of 12,000 genes that were highly ranked for differential expression and alternative splicing in the presence of ICP27 vs. control showed aberrant mRNA processing. Identified aberrant mRNA processing in cells expressing ICP27 included intron retention, use of intronic PASs, and use of cryptic 5′ splice sites.