| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2463 | 61548 | G | A | 39 | 273.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2463 | 61593 | C | T | 20 | 410.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2463 | 62802 | A | G | 11 | 50.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2463 | 116739 | G | A | 12 | 98.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_2465 | 9064 | T | C | 19 | 73.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2468 | 36565 | G | A,T | 117 | 6518.77 | noncoding | Transition | 1/2 | Unannotated |
| Scaffold_2468 | 36598 | T | C | 57 | 873.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2468 | 54043 | G | A | 12 | 43.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2468 | 76947 | G | A | 13 | 234.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2470 | 28418 | T | C | 33 | 727.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2472 | 108399 | C | T | 16 | 69.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2473 | 96721 | A | G | 66 | 246.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2474 | 57913 | T | C | 70 | 55.77 | CDS | Transition | 0/1 | Calcium-dependent protein kinase 19 (OsCDPK19) (OsCPK19) (EC 2.7.11.1) (Calcium-dependent protein kinase isoform 2) (OsCDPK2) (OsCPK2) |
| Scaffold_2474 | 57940 | A | G | 70 | 92.77 | CDS | Transition | 0/1 | Calcium-dependent protein kinase 19 (OsCDPK19) (OsCPK19) (EC 2.7.11.1) (Calcium-dependent protein kinase isoform 2) (OsCDPK2) (OsCPK2) |
| Scaffold_2474 | 59101 | A | G | 16 | 297.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_2474 | 60870 | A | G | 18 | 117.77 | intron | Transition | 0/1 | Calcium-dependent protein kinase 19 (OsCDPK19) (OsCPK19) (EC 2.7.11.1) (Calcium-dependent protein kinase isoform 2) (OsCDPK2) (OsCPK2) |
| Scaffold_2474 | 60886 | T | C | 16 | 152.77 | intron | Transition | 0/1 | Calcium-dependent protein kinase 19 (OsCDPK19) (OsCPK19) (EC 2.7.11.1) (Calcium-dependent protein kinase isoform 2) (OsCDPK2) (OsCPK2) |
| Scaffold_2475 | 2599 | T | C | 21 | 194.77 | CDS | Transition | 0/1 | Protein tesmin/TSO1-like CXC 5 (AtTCX5) |
| Scaffold_2475 | 2731 | C | T | 36 | 103.77 | CDS | Transition | 0/1 | Protein tesmin/TSO1-like CXC 5 (AtTCX5) |
| Scaffold_2475 | 104500 | A | G | 17 | 74.77 | noncoding | Transition | 0/1 | Unannotated |