Table 6.
Summary of gene structure prediction by three strategies of Solanum rostratum.
| Gene set | Number of proteins | Average gene length (bp) | Average cds length (bp) | Average exons per gene | Average exon length (bp) | Average intron length (bp) | |
|---|---|---|---|---|---|---|---|
| ab initio prediction | Augustus | 29,485 | 4,661.13 | 1,284.52 | 4.89 | 262.70 | 869.09 |
| GeneMark | 33,190 | 4,931.98 | 1,127.19 | 5.35 | 210.83 | 876.39 | |
| SNAP | 26,142 | 17,230.72 | 596.34 | 3.93 | 151.56 | 5669.30 | |
| Transcriptome-based prediction | cDNA | 27,408 | 7,687.74 | 1,493.68 | 6.93 | 387.13 | 845.39 |
| Homology-based prediction | Capsicum annuum | 32,842 | 3,902.16 | 1,137.54 | 4.76 | 239.12 | 736.83 |
| Solanum chilense | 27,145 | 3,902.19 | 1,150.88 | 4.79 | 240.17 | 726.58 | |
| Solanum commersonii | 41,616 | 3,270.56 | 905.08 | 4.35 | 208.08 | 707.19 | |
| Solanum lycopersicum | 28,703 | 4,264.34 | 1,255.14 | 5.04 | 248.87 | 745.25 | |
| Solanum melongena | 32,600 | 3,497.00 | 1,018.97 | 4.47 | 227.85 | 714.71 | |
| Solanum pennellii | 29,777 | 4,275.29 | 1,252.46 | 5.03 | 249.07 | 751.35 | |
| Solanum tuberosum | 29,750 | 4,256.09 | 1,245.78 | 5.03 | 247.55 | 747.54 | |
| Total | EVM | 29,694 | 4,308.30 | 1,171.80 | 4.95 | 236.83 | 795.49 |