Fig. 2

General features of newly identified transcriptional units (TUs). a Schematic representation of the gene-associated (green) and independent (yellow) transcriptional units annotated in this study. b Upper panels: genome browser views of nuclear RNA-seq signals in HeLa cells, for example, TUs (red and blue indicate RNA-seq reads mapping to the sense and antisense strands, respectively). Lower panels: genomic annotations of pre-existing genes and newly identified TUs; horizontal line divides the features on the sense (S) and antisense (A) orientations. Coverage is reported at 1× depth (reads per genome coverage (RPGC)). c Comparison of the number of annotated and newly identified transcripts detected in the current RNA-seq dataset (TPM ≥ 1). d Comparison of transcript lengths. e Proportions of uniquely mapping RNA-seq reads originating from different transcript types for the whole cell (left) and nuclear (right) subcellular fractions of HeLa cells. f Distributions of expression levels of annotated and newly identified TUs for the chromatin-associated (left panel) and nucleoplasm (right panel) subcellular fractions of HeLa cells