Table 2. Height associated SNPs ascertained for the phenotype inference analysis from the gourd's genome. The allelic load column represents the number of height increase alleles for that SNP that our individual carries. EAF (“Effect Allele Frequency”) is the allele that exerts an increase in cm in height. The allelic load can be 0, 1 or 2 depending if the individual carries none, one copy or two copies of the EAF allele, respectively. Mean refers to mean in height of the individuals analyzed and SD is the standard deviation.
| chr. | region | position | pubmed ID | SNP | EAF | Beta/Allele (cm) | pvalue | mean | SD | gourd's DNA allelic load |
|---|---|---|---|---|---|---|---|---|---|---|
| 12 | 12p12.2 | 20758613 | 18391951 | rs11611208 | 0.067 | 0.76 | 2e-06 | 177.68 | 6.7 | 0 |
| 3 | 3q23 | 141102833 | 18391951 | rs6763931 | 0.572 | 0.496 | 1e-27 | 177.68 | 6.7 | 0 |
| 15 | 15q25.2 | 84573041 | 20397748 | rs7183263 | 0.496 | 0.484 | 4e-07 | 178.4 | 6.92 | 0 |
| 6 | 6p24.3 | 7720059 | 18391951 | rs12198986 | 0.509 | 0.455 | 2e-11 | 177.68 | 6.7 | 0 |
| 1 | 1q24.3 | 172189889 | 18391951 | rs678962 | 0.885 | 0.361 | 3e-08 | 177.68 | 6.7 | 0 |
| 6 | 6q22.32 | 126835655 | 18391951 | rs1490388 | 0.571 | 0.321 | 6e-07 | 177.68 | 6.7 | 0 |
| 6 | 6p22.3 | 17699322 | 18391951 | rs12199222 | 0.257 | 0.295 | 7e-07 | 177.68 | 6.7 | 0 |
| 12 | 12p12.2 | 20857467 | 20881960 | rs10770705 | 0.367 | 0.205 | 8e-18 | 175.53 | 6.8 | 0 |
| 12 | 12p13.2 | 11855773 | 20881960 | rs2856321 | 0.397 | 0.205 | 5e-15 | 175.53 | 6.8 | 0 |
| 4 | 4q12 | 57823476 | 20881960 | rs17081935 | 0.169 | 0.205 | 4e-11 | 175.53 | 6.8 | 0 |
| 9 | 9q22.31 | 95429120 | 20881960 | rs9969804 | 0.432 | 0.205 | 8e-17 | 175.53 | 6.8 | 0 |
| 1 | 1p36.33 | 2069172 | 20881960 | rs425277 | 0.239 | 0.135 | 2e-08 | 175.53 | 6.8 | 0 |
| 4 | 4p15.31 | 17944840 | 18391952 | rs16896068 | 0.881 | 0.47 | 2e-13 | 175.37 | 6.83 | 1 |
| 3 | 3q21.3 | 129050756 | 20881960 | rs6439167 | 0.212 | 0.205 | 9e-15 | 175.53 | 6.8 | 2 |
| 15 | 15q23 | 70048157 | 20881960 | rs10152591 | 0.903 | 0.272 | 3e-10 | 175.53 | 6.8 | 2 |
| 1 | 1q42.13 | 227797950 | 18391952 | rs1390401 | 0.754 | 0.273 | 5e-09 | 175.37 | 6.83 | 2 |
| 15 | 15q25.2 | 84315884 | 18391951 | rs2554380 | 0.83 | 0.301 | 9e-07 | 177.68 | 6.7 | 2 |
| 8 | 8q24.21 | 130725665 | 20881960 | rs6470764 | 0.798 | 0.34 | 2e-28 | 175.53 | 6.8 | 2 |
| 18 | 18q21.1 | 46991160 | 18391952 | rs8099594 | 0.602 | 0.34 | 3e-07 | 175.37 | 6.83 | 2 |
| 7 | 7p22.3 | 2763102 | 18391951 | rs798544 | 0.699 | 0.39 | 7e-15 | 177.68 | 6.7 | 2 |
| 2 | 2q35 | 219943846 | 18391952 | rs6724465 | 0.894 | 0.41 | 2e-08 | 175.37 | 6.83 | 2 |
| 4 | 4q31.21 | 145643079 | 18391952 | rs6854783 | 0.549 | 0.41 | 2e-09 | 175.37 | 6.83 | 2 |
| 18 | 18q11.2 | 20724328 | 18391951 | rs4800148 | 0.761 | 0.43 | 4e-09 | 177.68 | 6.7 | 2 |