| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2481 | 35919 | C | T | 248 | 249.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2483 | 24985 | G | A | 35 | 550.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2488 | 72373 | C | T | 44 | 69.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2489 | 14457 | T | C | 25 | 34.77 | exon | Transition | 0/1 | CBL-interacting protein kinase 2 (EC 2.7.11.1) (OsCIPK02) |
| Scaffold_2490 | 1005 | A | G | 33 | 503.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2490 | 1057 | A | G | 97 | 1556.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2490 | 1097 | G | A | 90 | 1526.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2491 | 22327 | A | G | 17 | 378.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2491 | 22335 | T | C | 18 | 46.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2491 | 22359 | C | T | 38 | 69.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2491 | 22396 | G | A | 36 | 273.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2491 | 22428 | T | C | 21 | 191.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2494 | 8323 | T | C | 12 | 52.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2495 | 67081 | A | G | 22 | 40.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2495 | 67409 | G | A | 14 | 69.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2495 | 103387 | C | T | 12 | 36.77 | exon | Transition | 0/1 | U-box domain-containing protein 30 (EC 2.3.2.27) (Plant U-box protein 30) (RING-type E3 ubiquitin transferase PUB30) |
| Scaffold_2495 | 104059 | A | G | 41 | 234.77 | exon | Transition | 0/1 | U-box domain-containing protein 30 (EC 2.3.2.27) (Plant U-box protein 30) (RING-type E3 ubiquitin transferase PUB30) |
| Scaffold_2495 | 104147 | G | A | 14 | 141.77 | exon | Transition | 0/1 | U-box domain-containing protein 30 (EC 2.3.2.27) (Plant U-box protein 30) (RING-type E3 ubiquitin transferase PUB30) |
| Scaffold_2495 | 104306 | G | A | 12 | 295.77 | exon | Transition | 0/1 | U-box domain-containing protein 30 (EC 2.3.2.27) (Plant U-box protein 30) (RING-type E3 ubiquitin transferase PUB30) |
| Scaffold_2495 | 104307 | T | C | 12 | 263.77 | exon | Transition | 0/1 | U-box domain-containing protein 30 (EC 2.3.2.27) (Plant U-box protein 30) (RING-type E3 ubiquitin transferase PUB30) |