Table 2.
Statistics for LiftOn at both the gene and transcript levels, after mapping RefSeq release v220 annotation from the human genome to Pan troglodytes (mPanTro3-v1.1), from Drosophila melanogaster (genome assembly release 6 + ISO1MT) to Drosophila erecta (Prin_Dsim_3.1), and from Mus musculus (GRCm39) to Rattus norvegicus (mRatBN7.2)
| Lift-over experiment | Feature | Reference/Target | Total feature count | Protein-coding feature count | Noncoding feature count | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Single copy | Extra copy | Extra copy count | Total | Single copy | Extra copy | Extra copy count | Total | ||||
| Homo sapiens→Pan troglodytes | Gene | Reference (GRCh38) | 37,986 | 19,927 | 18,059 | ||||||
| Target (Pan_trog_v1) | 38,879 | 19,485 | 157 | 535 | 20,177 | 17,596 | 271 | 835 | 18,702 | ||
| Transcript | Reference (GRCh38) | 160,561 | 130,528 | 30,033 | |||||||
| Target (Pan_trog_v1) | 161,222 | 128,859 | 450 | 899 | 130,208 | 29,233 | 404 | 1377 | 31,014 | ||
| Drosophila melanogaster→Drosophila erecta | Gene | Reference (D. melanogaster) | 16,005 | 13,962 | 2043 | ||||||
| Target (D. erecta) | 15,276 | 13,180 | 140 | 152 | 13,472 | 1804 | 0 | 0 | 1804 | ||
| Transcript | Reference (D. melanogaster) | 33,176 | 30,749 | 2427 | |||||||
| Target (D. erecta) | 32,143 | 29,739 | 138 | 150 | 30,027 | 2116 | 0 | 0 | 2116 | ||
| Mus musculus→Rattus norvegicus | Gene | Reference (M. musculus) | 35,551 | 22,192 | 13,359 | ||||||
| Target (R. norvegicus) | 33,706 | 20,490 | 126 | 164 | 20,780 | 12,926 | 0 | 0 | 12,926 | ||
| Transcript | Reference (M. musculus) | 119,745 | 96,192 | 23,553 | |||||||
| Target (R. norvegicus) | 115,855 | 92,767 | 125 | 163 | 93,055 | 22,800 | 0 | 0 | 22,800 | ||
