GENCODE: producing a reference annotation for ENCODE

Table 1 Analysis of RefSeq and ENSEMBL ENCODE annotation compared with GENCODE

	RefSeq	ENSEMBL
No. (unique) exons	3,984	4,734
No. transcripts	577	738
No. exons overlapping GENCODE exons (%)	5,118 (98.6%)	4,469 (94.4%)
No. transcripts overlapping GENCODE (%)	567 (98.3%)	675 (91.5%)
No. GENCODE exons overlapped (total = 8,865) (%)	7,084 (80.0%)	7,450 (84.0%)
No. GENCODE transcripts overlapped (total = 2,608) (%)	2,327 (89.2%)	2,395 (91.8%)

ISSN: 1474-760X