The genomic coordinates of human poly(A) sites profiled by high-throughput sequencing of 3′ ends of polyadenylated transcripts (poly(A)-seq) that were supported by 20 or more reads and intersected with the annotated transcript ends in GENCODE database were used57. Similarly, clusters of human CAGE tags expressed in the HepG2 cell line that were supported by RPKM of at least 10 and intersected with the annotated transcript starts in GENCODE database were used137.

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