Examples of ERβ-specific splicing events. A) Example of alternative splicing in the SGK1 gene. The upper panel shows a schematic representation of two differentially regulated isoforms of the gene (same as those shown in Figure 3 for the same gene), differing in the transcription start site, in the inclusion of the first intron (the gene is encoded by the reverse strand) and in the transcription stop site. The lower panels show a representation of the RNA-Seq reads and junction reads associated with the gene in the different conditions: Ct-ERβ (MCF-7 subclone stably expressing ERβ tagged with the TAP-tag at the C-terminus) without or with E2 stimulation, and wt (parental MCF-7 line) without or with E2 stimulation. B) Example of ERβ-specific alternative promoter usage in the gene PSD3. The left panel shows a heat map with the fold change of all the primary transcripts associated with the gene in: Ct-ERβ (MCF-7 subclone stably expressing ERβ tagged with the TAP-tag at the C-terminus); Nt-ERβ (MCF-7 subclone stably expressing ERβ tagged with the TAP-tag at the N-terminus); wt (parental MCF-7 cells). The right panels show the logarithm base 10 (log10) FPKM for each of the different transcript start sites (from TSS01 to TSS09) corresponding with the different gene isoforms in the above described cell lines, without (left) or with (right) E2 stimulation.