| SNP Id | Position | Function |
| Scaffold_203 | 70333 | Unannotated |
| Scaffold_204 | 3335 | Unannotated |
| Scaffold_205 | 393 | Unannotated |
| Scaffold_206 | 46514 | Unannotated |
| Scaffold_212 | 12169 | Unannotated |
| Scaffold_215 | 14360 | Unannotated |
| Scaffold_215 | 79503 | Unannotated |
| Scaffold_216 | 2390 | Unannotated |
| Scaffold_219 | 83522 | Unannotated |
| Scaffold_221 | 16287 | Unannotated |
| Scaffold_221 | 16587 | Unannotated |
| Scaffold_222 | 29684 | Unannotated |
| Scaffold_222 | 61638 | Unannotated |
| Scaffold_222 | 61658 | Unannotated |
| Scaffold_222 | 62148 | Unannotated |
| Scaffold_223 | 23747 | Unannotated |
| Scaffold_226 | 56696 | Unannotated |
| Scaffold_235 | 69921 | Unannotated |
| Scaffold_236 | 32907 | Two-component response regulator ORR21 (OsRRB1) |
| Scaffold_237 | 12622 | Unannotated |