Figure 2
From: Deep sequencing reveals a novel class of bidirectional promoters associated with neuronal genes
Properties of novel transcripts. (a) Distributions of coding potential scores estimated for novel transcripts (red) and annotated protein-coding genes (PCG, gray) using CPC (Coding Potential Calculator). Negative scores indicate low coding potential. (b) Cumulative distribution of exon sequence conservation levels estimated using PhastCons scores based on 17 vertebrate species’ genomes. The colors indicate novel transcripts (red), random intergenic regions (black), annotated lncRNAs (blue), pseudogenes (pink), UTR exons (purple) and protein-coding exons (green). (c) Nucleotide composition at and around the splice sites (positions 11-12) of annotated protein-coding genes (PCG, upper panel) and novel transcripts (bottom panel). (d) H3K4me3 modification profiles at the promoter region of annotated protein-coding genes (PCG, upper panel) and novel transcripts (bottom panel). Transcription start site (TSS) position of novel transcripts was estimated using deepCAGE data from brain tissues. (e) Nucleotide composition around the transcript termination sites (TTS) of annotated protein-coding genes (PCG, upper panel) and novel transcripts (bottom panel). (f) Tissue specificity of expression for annotated protein-coding genes (PCG), annotated lncRNA (lncRNA) and novel transcripts (novel), calculated using Body Map data. (g) Cellular localization (cytosol to nucleus expression level [RPKM] ratio) of annotated protein-coding genes (PCG), annotated lncRNA (lncRNA) and novel transcripts (novel).