FIG. 4.—

The distribution of conserved intragenic tags located near genes. The x axis shows the distance from a RefSeq region either upstream (left) or downstream (right) of a gene. Each count on the y axis is the number of locations to which five or more tags map and are conserved in sequence between the following two or three species. (A). Sense tags conserved between humans, chimpanzees, and macaques. (B). Antisense tags conserved between humans, chimpanzees, and macaques. The panels are colored based on conserved transcription. For tags sequenced from the sense strand conservation is indicated between humans and chimpanzees (blue) or between humans, chimpanzees, and macaques (dark blue). For tags from the antisense strand, relative to the proximal gene’s direction of transcription, conservation is labeled between humans and chimpanzees (red) or between humans, chimpanzees, and macaques (dark red). The schematic in the upper corners of each histogram are to illustrate where the tags are coming from relative to the coding regions (gray boxes, the grey arrow indicates the transcriptional start site). The sense (dark blue) or antisense (dark red) tags are coming from RNA transcripts of unknown length (here illustrated in blue [sense] or red [antisense]).