| SNPs Id | Position | Function |
| Scaffold_417 | 10920 | Unannotated |
| Scaffold_424 | 65839 | Unannotated |
| Scaffold_426 | 474 | Probable GTP-binding protein OBGC1, chloroplastic |
| Scaffold_428 | 53799 | Unannotated |
| Scaffold_430 | 55275 | Unannotated |
| Scaffold_430 | 55293 | Unannotated |
| Scaffold_434 | 43690 | Transcription termination factor MTERF9, chloroplastic (Mitochondrial transcription termination factor 9) (Protein TWIRT1) |
| Scaffold_435 | 5819 | Cystathionine beta-lyase, chloroplastic (CBL) (EC 4.4.1.8) (Beta-cystathionase) (Cysteine lyase) |
| Scaffold_435 | 24896 | Cytochrome P450 84A1 (EC 1.14.-.-) (Ferulate-5-hydroxylase) (F5H) |
| Scaffold_440 | 15292 | Unannotated |
| Scaffold_447 | 67777 | Unannotated |
| Scaffold_447 | 67819 | Unannotated |
| Scaffold_447 | 67839 | Unannotated |
| Scaffold_451 | 69057 | Oryzain alpha chain (EC 3.4.22.-) |
| Scaffold_458 | 29708 | Eukaryotic translation initiation factor 5 (eIF-5) |
| Scaffold_458 | 30430 | Eukaryotic translation initiation factor 5 (eIF-5) |
| Scaffold_458 | 30536 | Eukaryotic translation initiation factor 5 (eIF-5) |
| Scaffold_459 | 2824 | Unannotated |
| Scaffold_460 | 74955 | Unannotated |
| Scaffold_468 | 52875 | Unannotated |