Table 1 Properties of various human genome annotations.
From: Assessing the impact of human genome annotation choice on RNA-seq expression estimates
| Â | Genome Annotations | |||||
|---|---|---|---|---|---|---|
| Â | AceView Genes | H-InvDB Genes | Ensembl Genes | VegaGenes | UCSCKnown Genes | RefSeqGenes |
Version | 2010 | 8.0 | 67 | 48 | - | - |
Database Downloaded Date | Nov. 12, 2011 | Apr. 20, 2012 | May 1, 2012 | June 26, 2012 | Dec. 21, 2011 | July 23, 2012 |
# of Genes | 72,376 | 43,893 | 48,817 | 44,880 | 28,423 | 23,731 |
# of Isoforms | 259,426 | 236,861 | 177,858 | 158,835 | 75,725 | 41,099 |
# of Exons | 678,503 | 542,099 | 534,400 | 493,509 | 273,711 | 227,710 |
Average # of Isoforms per Gene | 3.58 | 5.40 | 3.64 | 3.54 | 2.66 | 1.73 |
Maximum # of Isoforms per Gene (with HGNC Gene Name) | 119 (TRAV37) | 885 (EEF1A1) | 82 (GPR56) | 77 (NDRG2) | 129 (UTY) | 77 (UTY) |
Annotated Percentage (%) Gene | 52.93 | 45.09 | 49.61 | 48.29 | 44.28 | 40.17 |
Exon | 5.70 | 3.72 | 3.63 | 3.53 | 2.70 | 2.27 |
Coding Sequence | 1.71 | 1.43 | 1.14 | 1.05 | 1.13 | 1.07 |