| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_724 | 37089 | T | C | 12 | 55.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_728 | 46727 | A | G | 10 | 30.77 | CDS | Transition | 0/1 | CDPK-related kinase 1 (AtCRK1) (EC 2.7.11.1) (Calcium/calmodulin-dependent protein kinase 3) (Calmodulin-binding protein kinase 3) (AtCBK3) (CaM-binding protein kinase 3) |
| Scaffold_731 | 39744 | G | A | 13 | 292.77 | CDS | Transition | 0/1 | Serine/threonine-protein kinase TOUSLED (EC 2.7.11.1) |
| Scaffold_732 | 47449 | A | G | 15 | 43.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_732 | 47556 | C | T | 19 | 102.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_736 | 57743 | A | G | 18 | 66.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_739 | 18184 | T | C | 31 | 34.77 | exon | Transition | 0/1 | tRNA(adenine(34)) deaminase, chloroplastic (TADA) (EC 3.5.4.33) (tRNA adenosine deaminase arginine) (tRNA arginine adenosine deaminase) |
| Scaffold_741 | 7370 | T | C | 14 | 239.77 | CDS | Transition | 0/1 | BTB/POZ domain-containing protein At5g66560 |
| Scaffold_741 | 7525 | G | A | 18 | 285.77 | CDS | Transition | 0/1 | BTB/POZ domain-containing protein At5g66560 |
| Scaffold_741 | 8508 | C | T | 22 | 468.77 | CDS | Transition | 0/1 | BTB/POZ domain-containing protein At5g66560 |
| Scaffold_741 | 10346 | A | G | 23 | 50.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_741 | 10513 | A | G | 17 | 526.94 | noncoding | Transition | 1/1 | Unannotated |
| Scaffold_741 | 42408 | T | C | 15 | 224.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_741 | 42495 | G | A | 14 | 269.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_744 | 11603 | A | G | 15 | 86.77 | CDS | Transition | 0/1 | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1 (EC 2.4.1.15) (Trehalose-6-phosphate synthase 1) (AtTPS1) |
| Scaffold_747 | 7987 | T | C | 19 | 461.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_747 | 8060 | A | G | 21 | 40.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_747 | 8117 | T | C | 10 | 222.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_749 | 25 | T | C | 11 | 172.78 | exon | Transition | 0/1 | Unannotated |
| Scaffold_751 | 25121 | G | A | 19 | 40.77 | CDS | Transition | 0/1 | Probable serine/threonine-protein kinase PBL19 (EC 2.7.11.1) (PBS1-like protein 19) |