Figure 3. Identification and directional classification of novel promoters.
a, DNaseI (blue) and H3K4me3 (red) tag densities for K562 cells around annotated TSS of ACTR3B. b, Averaged H3K4me3 tag density (red, right y-axis) and log DNaseI tag density (blue, left y-axis) across 10,000 randomly selected Gencode TSSs, oriented 5’→3’. Each blue and red curve is for a different cell-type, showing invariance of the pattern. c, Relation of 113,615 promoter predictions to Gencode annotations, with supporting EST and CAGE evidence (bar at right). d-f, Examples of novel promoters identified in K562; red arrow marks predicted TSS and direction of transcription, with CAGE tag clusters, spliced ESTs and Gencode annotations above. d, Novel TSS confirmed by CAGE and ESTs. e, Novel TSS confirmed by CAGE, no ESTs. Note intronic location. f, Antisense prediction within annotated gene.