Table 2 Additive × environment interaction QTLs (MET-QTLs) for grain protein content (GPC) and single grain protein content (SGPC).
MET-QTL | Chromo-some | Position (Mb) | Left Marker | Right Marker | Peak locus | SNP information | LOD | PVE | PVE (A) | PVE (AbyE) | Add | AbyE_01 | AbyE_02 | Heritability (h2) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Eq-SGPC1.1 | 1 | 0.861041 | Affx-93237905 | Affx-93229368 | CSCWR_Os01g02590__61041 | Non-synonymous SNP, resides in gene | 4.604 | 6.553 | 6.475 | 0.077 | −0.078 | 0.009 | −0.009 | 0.988 |
Eq-SGPC1.2 | 1 | 1.504321 | Affx-93256957 | Affx-93252910 | SCR200_Os01g03650_04321 | Resides in gene, synonymous SNP | 4.289 | 5.394 | 4.310 | 1.084 | 0.057 | −0.028 | 0.028 | 0.799 |
Eq-SGPC2.1 | 2 | 5.665058 | Affx-93260438 | Affx-93236905 | CSCWR_Os02g10740_65058 | Resides in gene, synonymous SNP | 4.416 | 3.811 | 3.762 | 0.049 | 0.052 | 0.006 | −0.006 | 0.987 |
Eq-SGPC2.2 | 2 | 26.38269 | Affx-93234385 | Affx-93236297 | CSCWR_Os02g43720_82691 | Resides in gene, resides in intron | 2.797 | 2.622 | 2.599 | 0.023 | −0.097 | 0.009 | −0.009 | 0.991 |
Eq-SGPC7.1 | 7 | 22.24752 | Affx-93225742 | Affx-93256949 | SCR100_Os07g37440_17971 | Resides in gene, resides in intron | 6.836 | 7.510 | 7.320 | 0.190 | 0.078 | −0.013 | 0.013 | 0.974 |
Eq-SGPC11.1 | 11 | 3.787716 | Affx-93232878 | Affx-93212320 | SCR200_Os11g07480_87716 | Non-synonymous SNP, resides in gene | 4.298 | 4.159 | 4.159 | 0.000 | 0.073 | 0.000 | 0.000 | 1.000 |
Eq-GPC1.1 | 1 | 0.861041 | Affx-93237905 | Affx-93229368 | CSCWR_Os01g02590__61041 | non-synonymous SNP, resides in gene | 6.923 | 8.988 | 8.885 | 0.103 | −0.427 | 0.046 | −0.046 | 0.988 |
Eq-GPC2.1 | 2 | 9.976316 | Affx-93243043 | Affx-93221488 | SCR200_Os02g17350_76316 | Resides in gene, synonymous SNP | 3.371 | 4.055 | 3.551 | 0.505 | 0.261 | −0.098 | 0.098 | 0.875 |
Eq-GPC3.1 | 3 | 35.27895 | Affx-93211998 | Affx-93250371 | SCR200_Os03g62388_78948 | Resides in gene, synonymous SNP | 2.592 | 2.935 | 2.696 | 0.239 | 0.221 | −0.066 | 0.066 | 0.918 |
Eq-GPC5.1 | 5 | 1.237304 | Affx-93260300 | Affx-93258158 | SCR200_Os05g03150_37304 | Resides in 3′ UTR, resides in gene | 2.543 | 2.649 | 2.649 | 0.000 | 0.221 | −0.001 | 0.001 | 1.000 |
Eq-GPC11.1 | 11 | 3.787716 | Affx-93232878 | Affx-93212320 | SCR200_Os11g07480_87716 | Non-synonymous SNP, resides in gene | 2.955 | 3.361 | 3.222 | 0.139 | 0.328 | −0.068 | 0.068 | 0.958 |
