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Hominoid-Specific De Novo Protein-Coding Genes Originating from Long Non-Coding RNAs

Figure 3

Orthologs of human de novo protein-coding genes encode structure-matched non-coding RNAs in rhesus macaque or chimpanzee.

(A) Summed RPKM scores (log2 transformed) of de novo genes in seven tissues from human and rhesus macaque. The human genes were ordered by decreasing expression level as a reference, and the rhesus genes were aligned accordingly. (B) For each de novo gene in Classes I and II, the base-level densities of RNA-Seq reads across the transcript (red), as well as the upstream/downstream regions (grey, 50% of the length of the transcript), are shown. The raw density scores computed from RNA-Seq reads coverage were normalized with the total reads across the region. (C) Splicing junctions with the sequence motifs near both the donor site and acceptor site, summarized by all splicing junctions in human de novo genes. (D) Venn diagram showing the numbers of human splicing junctions detected also in chimpanzee or rhesus macaque. Pie charts further illustrate the detailed status of human splicing junctions in chimpanzee and rhesus macaque.

Figure 3

doi: https://doi.org/10.1371/journal.pgen.1002942.g003