Table 7.
Summary of gene structure prediction in D. kaki genome.
| Gene set | Number | Average gene length (bp) | Average CDS length (bp) | Average exons per gene | Average exon length (bp) | Average intron length (bp) | |
|---|---|---|---|---|---|---|---|
| De novo | Augustus | 177,974 | 5,346.69 | 1,022.08 | 4.14 | 246.89 | 1,377.34 |
| GlimmerHMM | 321,260 | 10,295.63 | 601.95 | 3.09 | 194.89 | 4,641.03 | |
| SNAP | 319,132 | 7,138.48 | 610.14 | 3.33 | 183.25 | 2,802.42 | |
| Geneid | 390,239 | 3,850.38 | 577.88 | 3.24 | 178.29 | 1,460.13 | |
| Genscan | 230,229 | 10,666.94 | 976.81 | 5.22 | 187.04 | 2,294.9 | |
| Homolog | Dlo | 359,850 | 1,914.73 | 816.37 | 2.76 | 296.06 | 624.97 |
| Ath | 207,508 | 3,745.85 | 932.2 | 3.17 | 294.28 | 1,297.97 | |
| Dol | 227,166 | 4,359.26 | 895.42 | 3.6 | 248.67 | 1,331.78 | |
| Ach | 245,176 | 3,571.73 | 835.91 | 2.77 | 301.63 | 1,544.5 | |
| Csi | 145,462 | 5,893.18 | 1,125.04 | 4.23 | 266.16 | 1,477.65 | |
| RNA-seq | Cufflinks | 239,070 | 11,977.18 | 2,111.23 | 6.58 | 320.70 | 1,767.08 |
| PASA | 54,520 | 10,118.79 | 1,743.09 | 6.33 | 275.39 | 1,571.55 | |
| EVM | 190,809 | 6,293.70 | 1,010.92 | 4.37 | 231.18 | 1,566.28 | |
| PASA-update | 190,490 | 6,309.20 | 1,018.09 | 4.39 | 231.90 | 1,560.69 | |
| Final set | 153,288 | 7,397.94 | 1,153.82 | 5.01 | 230.33 | 1,557.38 | |