| SNPs Id | Position | Function |
| Scaffold_2943 | 13245 | Unannotated |
| Scaffold_2952 | 23215 | Unannotated |
| Scaffold_2953 | 5392 | Unannotated |
| Scaffold_2953 | 5702 | NAD(P)H-quinone oxidoreductase chain 4, chloroplastic (EC 1.6.5.-) (NAD(P)H dehydrogenase, chain 4) (NADH-plastoquinone oxidoreductase chain 4) |
| Scaffold_2953 | 22484 | Unannotated |
| Scaffold_2953 | 29050 | NAD(P)H-quinone oxidoreductase subunit 5, chloroplastic (EC 1.6.5.-) (NAD(P)H dehydrogenase subunit 5) (NADH-plastoquinone oxidoreductase subunit 5) |
| Scaffold_2954 | 113 | UDP-glycosyltransferase 88F4 (EC 2.4.1.-) (UDP-glucose:chalcone 2'-O-glucosyltransferase) |
| Scaffold_2962 | 9537 | Unannotated |
| Scaffold_2962 | 9539 | Unannotated |
| Scaffold_2966 | 14556 | Unannotated |
| Scaffold_2966 | 14558 | Unannotated |
| Scaffold_2967 | 50463 | Unannotated |
| Scaffold_2967 | 51263 | Unannotated |
| Scaffold_2968 | 2013 | Unannotated |
| Scaffold_2968 | 2494 | Unannotated |
| Scaffold_2968 | 2496 | Unannotated |
| Scaffold_2968 | 3992 | Unannotated |
| Scaffold_2968 | 39944 | Unannotated |
| Scaffold_2971 | 35848 | ATP-dependent zinc metalloprotease FTSH 12, chloroplastic (AtFTSH12) (EC 3.4.24.-) |
| Scaffold_2971 | 36783 | ATP-dependent zinc metalloprotease FTSH 2, chloroplastic (OsFTSH2) (EC 3.4.24.-) |