Table 1. Comparisons of five tree shrew genome annotations.
| Parameters | TupChi_1.0 (NCBI) | TupaiaBase | TS_1.0 | TS_2.0 | TS_3.0 |
| Tree shrew genome annotations TS_1.0 (Fan et al., 2013), TS_2.0 (Fan et al., 2019), and TS_3.0 (this study) were established in our studies. Tupchi_1.0, NCBI tree shrew annotation (https://www.ncbi.nlm.nih.gov/assembly/GCF_000334495.1/). TupaiaBase was reported by (Sanada et al., 2019). BUSCO: Benchmarking with Universal Single-Copy Orthologs. –: Not available. | |||||
| Coding genes | |||||
| Total number of coding genes | 23 527 | 19 230 | 22 121 | 23 568 | 27 082 |
| Transcript per coding gene | 1.59 | 1 | 1 | 1 | 2.17 |
| Annotated coding genes | 23 537 | 12 612 | 20 225 | 20 811 | 25 127 |
| Average mRNA length | 48 104 | 33 712 | 40 114 | 41 239 | |
| Average CDS length | 1 682 | 1 419 | 1 404 | 1 527 | 1 684 |
| Average exon number | 8.34 | 7.68 | 7.54 | 8.86 | 9.32 |
| Average exon length | 229 | 185 | 186 | 172 | 181 |
| Average intron length | 6 003 | 3 411 | 4937 | 4907 | 4 863 |
| Complete BUSCOs
(Eukaryota 255 genes) |
216
(84.7%) |
195
(76.5%) |
221 (86.7%) | 235
(92.2%) |
250
(98.0%) |
| Complete BUSCOs
(Mammalia 9 224 genes) |
7 884
(85.5%) |
6 080
(65.9%) |
7 568
(82.0%) |
7 519
(81.5%) |
8 559
(92.8%) |
| Non-coding genes | |||||
| Total number of lncRNA genes | 3 718 | – | – | – | 56 401 |
| Transcripts per lncRNA gene | 5 179 | – | – | – | 2.05 |
| Average lncRNA length | 914 | – | – | – | 823 |
| Average exon number | 3.54 | – | – | – | 3.06 |
| Average intron length | 17 614 | – | – | – | 4 658 |