To summarize, we have manually annotated 11,224 pseudogene loci that are in GENCODE 7 level 2 category. These have been compared with automatic models to produce a consensus set of 7183 loci that have been elevated to level 1. Of these, a total of 480 pseudogenes have been manually tagged as “transcribed” based on publicly available EST or cDNA evidence, and an additional 454 pseudogenes have been identified as transcribed due to alignment of HBM data (Pei et al. 2012).
