Table 2.
Genes co-located with red rot resistance associated SNPs.
| SNP (AX#) | P value | Effect size | Nearby genes (Sobic.#) | kb from SNP | Gene family/function |
|---|---|---|---|---|---|
| 117163812 | 3.73E-08 | -0.8772 | 001G000400 | 0.0 | Pleiotropic drug resistance protein. |
| 117962959 | 1.13E-09 | -0.9654 | 002G141200 | 0.0 | DNA binding protein. |
| 117995732 | 1.39E-07 | 0.8357 | 003G302400 | 0.0 | Unknown protein. |
| 117891751 | 8.65E-09 | 0.8897 | 005G126600 | 0.0 | Auxin signalling F-box 2. |
| 118058341 | 3.78E-08 | 0.8504 | 005G142900 | 0.0 | Pentatricopeptide repeat (PPR) superfamily protein. |
| 118121450 | 8.50E-08 | 0.8353 | 005G143300 | 0.0 | Histone chaperone domain CHZ domain containing protein. |
| 117949242 | 6.62E-09 | -0.9233 | 005G149600 | 2.5 | Cytochrome P450, family 76, subfamily C, polypeptide 2. Biotic stress inducible in Arabidopsis. |
| 117315834 | 1.03E-07 | -0.8287 | 005G153000 | 0.0 | Agenet domain containing protein. |
| 118032095 | 1.09E-08 | -0.8979 | 005G154800 | 0.0 | OsWAK receptor-like cytoplasmic kinase. |
| 118019715 | 9.90E-08 | 0.8439 | 005G160600 | 0.5 | OsFBO15 – F-box and other domain containing protein. |
| 117191093 | 8.34E-08 | -0.8368 | 005G162900 | 0.0 | DNAJ heat shock N-terminal domain-containing protein. |
| 117891837 | 1.01E-07 | 0.8397 | 005G163400 | 0.0 | DNAJ heat shock N-terminal domain-containing protein. Biotic stress responsive in Arabidopsis. |
| 117992398 | 1.67E-07 | 0.8141 | 005G176600 | 1.0 | Eukaryotic aspartyl protease. |
| 117209536 | 8.00E-10 | 0.9071 | 005G177800 | 0.0 | Basic helix-loop-helix (bHLH) DNA-binding superfamily protein. |
| 117272856 | 1.21E-07 | 0.8837 | 005G180900 | 1.0 | DUF630/DUF632 domains containing protein, putative, expressed. bZIP transcription factor. |
| 117155383 | 5.83E-08 | 0.8824 | 005G181000 | 0.0 | Acyl-coenzyme A oxidase. Biotic stress responsive in Arabidopsis. |
| 117133021 | 7.78E-09 | -0.9088 | 005G182200 | 0.0 | NB-ARC domain-containing disease resistance protein. |
| 117177631 | 1.02E-09 | -0.9732 | 005G183600 | 0.0 | Mannose-binding lectin superfamily protein. Similar to Jasmonate-induced protein. |
| 118058750 | 3.87E-08 | -0.9076 | 005G186200 | 0.5 | PATATIN-like protein 4. |
| 117168779 | 7.38E-08 | 0.9070 | 005G189700 | 0.0 | Expressed protein. |
| 117870219 | 2.06E-09 | 0.9613 | 005G200300 | 1.0 | Tyrosine aminotransferase. |
| 118126726 | 1.99E-08 | 0.9474 | 005G204700 | 0.0 | Pectin lyase fold/virulence factor domain containing protein. |
| 118011427 | 4.81E-08 | 0.9321 | 005G209600 | 0.0 | P-loop nucleoside triphosphate hydrolases superfamily protein with CH (Calponin Homology) domain. |
| 117927589 | 1.03E-09 | -0.9799 | 005G212800 | 2.0 | Carboxyl-terminal peptidase, unknown function. |
| 117301744 | 1.34E-08 | 0.8960 | 009G216700 | 0.0 | WD domain, G-beta repeat domain containing protein. |
| 117874758 | 9.39E-08 | 0.8523 | 010G054400 | 0.0 | Leucine-rich repeat protein kinase family protein. Biotic stress responsive in Arabidopsis. |
| 117154432 | 2.00E-07 | 0.8357 | 010G214500 | 0.0 | Purple acid phosphatase. |
| 117133579 | 5.39E-09 | -0.9333 | K004600 | 1.0 | NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 protein. |
| 117879610 | 7.51E-08 | -0.8435 | K031500.1 | 0.0 | DNA binding, ATP binding. |
A distance from SNP of 0.0 kb indicates that the SNP occurs within the gene. Only highly significant SNPs (p ≤ 10-6) with closely co-located genes on the sorghum genome are listed in the table. Effect size indicates the difference between clones with the SNP and the clones that are homozygous and lack the SNP (in rating units).