Table 5.
List of the most reliable candidate genes selected within the differentially enriched regions according to SNPeff output, which suggests the severity of the effect potentially provoked by the allelic variant in the ‘305E40’ line with respect to the ‘67/3’ reference gene form. For each candidate gene, the differentially represented regions of provenance are indicated, together with the SNPeff and the expression levels in different tissues of ‘67/3’ including roots retrieved from RNAseq data already available [35].
| Expression Level | ||||||||
|---|---|---|---|---|---|---|---|---|
| Diff. Region | Gene ID | SnpEff | Roots | Expanded Leaves | Open Flowers | Fruits 2–4 cm | Fruit Stage B | Fruit Stage C |
| A | SMEL_011g374890.1 | Mod | 0 | 0 | 0 | 0 | 0 | 0 |
| A | SMEL_011g374900.1 | High | 0.716154 | 12.2523 | 0 | 8.27647 | 3.05559 | 2.95479 |
| A+ | SMEL_011g374910.1 | High | 0 | 5.38543 | 0 | 4.35919 | 4.00833 | 16.8497 |
| A+ | SMEL_011g374920.1 | High | 26.9772 | 25.087 | 31.93 | 9.58168 | 16.8583 | 50.3871 |
| B | SMEL_011g375310.1 | High | 0 | 0 | 0 | 0 | 0.221595 | 0.474865 |
| B | SMEL_011g375320.1 | Mod | 0 | 0 | 0 | 0 | 0.636017 | 0 |
| D | SMEL_011g376860.1 | High | 0 | 0 | 0 | 0 | 0 | 0 |
| D | SMEL_011g376900.1 | High | 0 | 0 | 0 | 0 | 0 | 0 |
| D | SMEL_011g376910.1 | High | 0 | 0 | 0 | 0 | 0 | 0 |
| E | SMEL_011g377340.1 | High | 1.31895 | 0 | 0 | 0.761885 | 1.12618 | 0 |
| E | SMEL_011g377380.1 | ND | 0 | 0 | 0 | 0 | 0 | 0 |