| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3532 | 30345 | C | G | 17 | 85.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3532 | 32253 | G | C | 40 | 91.77 | CDS | Transversion | 0/1 | Two-component response regulator-like APRR1 (ABI3-interacting protein 1) (Pseudo-response regulator 1) (Timing of CAB expression 1) |
| Scaffold_3532 | 32256 | T | G | 38 | 45.77 | CDS | Transversion | 0/1 | Two-component response regulator-like APRR1 (ABI3-interacting protein 1) (Pseudo-response regulator 1) (Timing of CAB expression 1) |
| Scaffold_3536 | 24016 | G | T | 57 | 725.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3536 | 35642 | G | C | 12 | 247.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3538 | 30609 | A | C | 21 | 90.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3538 | 30666 | A | C | 24 | 345.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3542 | 28848 | T | A | 32 | 460.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3544 | 3078 | T | G | 79 | 1838.77 | CDS | Transversion | 0/1 | RNA polymerase II C-terminal domain phosphatase-like 1 (FCP-like 1) (EC 3.1.3.16) (Carboxyl-terminal phosphatase-like 1) (AtCPL1) (CTD phosphatase-like 1) (Protein FIERY 2) (Protein JASMONATE OVEREXPRESSING 1) (Protein SHINY 4) |
| Scaffold_3544 | 3156 | A | T | 36 | 255.77 | CDS | Transversion | 0/1 | RNA polymerase II C-terminal domain phosphatase-like 1 (FCP-like 1) (EC 3.1.3.16) (Carboxyl-terminal phosphatase-like 1) (AtCPL1) (CTD phosphatase-like 1) (Protein FIERY 2) (Protein JASMONATE OVEREXPRESSING 1) (Protein SHINY 4) |
| Scaffold_3544 | 3174 | C | G | 24 | 238.77 | CDS | Transversion | 0/1 | RNA polymerase II C-terminal domain phosphatase-like 1 (FCP-like 1) (EC 3.1.3.16) (Carboxyl-terminal phosphatase-like 1) (AtCPL1) (CTD phosphatase-like 1) (Protein FIERY 2) (Protein JASMONATE OVEREXPRESSING 1) (Protein SHINY 4) |
| Scaffold_3544 | 22802 | G | T | 12 | 169.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3544 | 43499 | A | C | 47 | 90.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3545 | 8510 | A | T | 247 | 223.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3547 | 28440 | T | A | 12 | 264.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3556 | 4986 | A | C | 13 | 279.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3562 | 1155 | G | T | 27 | 216.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3567 | 25805 | A | T | 10 | 59.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3574 | 51034 | C | A | 56 | 60.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3574 | 51050 | A | C | 212 | 2044.77 | CDS | Transversion | 0/1 | Puromycin-sensitive aminopeptidase (PSA) (EC 3.4.11.14) (Cytosol alanyl aminopeptidase) (AAP-S) |