Table 6. Significant associations detected in the japonica panel (167 accessions) for the measured traits.
| QTL | Chr | Position | LLGTH | NBT | SB | RB | PB | ANGLE | RB0020 | RB2030 | RBB30 | DRB | NBR_30 | LENGTH | DEPTH | DRP | R_S | PCA1 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| q1 | 1 | 937 008 | ns | 6.31E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q2 | 1 | 1 492 914 | 1 496 524 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | 3.03E-04 | ns | 7.97E-05 | ns |
| q3 | 1 | 2 460 843 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | 3.48E-06 | ns | ns | ns | 1.46E-04 | |
| q4 | 1 | 5 944 759 | ns | ns | ns | ns | ns | ns | ns | ns | ns | 6.95E-05 | ns | ns | ns | ns | ns | ns | |
| q5 | 1 | 21 203 185 | ns | ns | ns | ns | ns | ns | ns | ns | 1.75E-04 | 8.86E-05 | ns | ns | ns | ns | ns | ns | |
| q6 | 1 | 28 624 318 | ns | ns | ns | ns | ns | ns | ns | ns | 3.50E-07 | 2.15E-06 | 5.90E-05 | 1.42E-04 | 6.99E-05 | ns | ns | 5.58E-05 | |
| q7 | 1 | 33 364 795 | ns | ns | ns | ns | ns | ns | ns | 1.35E-04 | 6.37E-06 | 2.71E-06 | ns | ns | 1.10E-05 | ns | ns | 1.04E-04 | |
| q8 | 1 | 34 890 451 | 34 939 105 | ns | 1.16E-07 | ns | ns | ns | ns | ns | ns | 2.36E-04 | 9.30E-05 | ns | ns | ns | 4.30E-04 | 4.27E-04 | ns |
| q9 | 1 | 40 960 461 | ns | ns | ns | ns | ns | 4.33E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q10 | 1 | 42 706 257 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | 8.12E-05 | ns | |
| q11 | 2 | 25 228 346 | ns | ns | ns | ns | ns | ns | ns | ns | 4.05E-05 | 1.07E-04 | ns | ns | ns | ns | ns | ns | |
| q12 | 2 | 27 406 953 | ns | ns | ns | ns | ns | ns | ns | ns | 1.53E-05 | 6.46E-05 | 6.81E-05 | ns | 8.09E-05 | ns | ns | 2.02E-04 | |
| q13 | 3 | 1 248 074 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | 4.90E-05 | ns | |
| q14 | 3 | 4 103 522 | 4 137 019 | ns | ns | ns | ns | ns | ns | ns | ns | 1.53E-04 | 7.25E-05 | ns | ns | ns | ns | ns | ns |
| q15 | 3 | 28 355 049 | ns | ns | ns | ns | ns | 7.01E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q16 | 3 | 35 694 641 | ns | ns | ns | ns | ns | 4.33E-06 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q17 | 4 | 1 708 585 | 4.09E-06 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q18 | 4 | 1 913 824 | ns | ns | ns | ns | ns | ns | ns | ns | 3.00E-05 | 1.38E-04 | ns | ns | ns | ns | ns | ns | |
| q19 | 4 | 2 913 501 | 3 411 429 | ns | ns | ns | ns | ns | 1.38E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns |
| q20 | 4 | 17 514 568 | ns | 1.48E-05 | 5.75E-06 | 1.11E-04 | 8.19E-06 | ns | 4.45E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q21 | 4 | 17 604 002 | ns | 2.93E-06 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q22 | 4 | 21 386 068 | 6.67E-07 | ns | ns | ns | ns | ns | ns | ns | ns | 3.43E-04 | 2.32E-04 | ns | ns | ns | ns | ns | |
| q23 | 4 | 30 477 063 | ns | ns | ns | ns | ns | ns | ns | 8.47E-05 | ns | 4.08E-05 | 4.69E-05 | ns | ns | 3.42E-04 | ns | 3.13E-04 | |
| q24 | 5 | 4 482 655 | ns | ns | ns | ns | ns | 4.00E-06 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q25 | 5 | 15 528 742 | ns | 1.69E-05 | 3.78E-05 | 1.98E-04 | 4.47E-05 | ns | 7.89E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q26 | 6 | 20 492 713 | 5.07E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q27 | 7 | 1 013 062 | ns | ns | ns | ns | ns | ns | ns | ns | 9.00E-05 | 3.11E-04 | 3.14E-04 | ns | ns | ns | ns | ns | |
| q28 | 7 | 10 820 565 | ns | ns | 4.83E-05 | ns | 9.21E-05 | ns | 4.43E-04 | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q29 | 7 | 13 278 293 | ns | ns | ns | ns | ns | 1.42E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q30 | 7 | 20 921 433 | 6.54E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q31 | 7 | 21 509 547 | ns | 3.08E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q32 | 7 | 26 566 561 | 4.77E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q33 | 7 | 27 436 607 | ns | ns | ns | ns | ns | ns | ns | ns | 1.02E-05 | 6.21E-06 | 6.39E-05 | ns | ns | ns | ns | ns | |
| q34 | 8 | 2 786 790 | 4.79E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q35 | 8 | 9 772 449 | ns | ns | ns | ns | ns | ns | ns | ns | ns | 2.96E-05 | ns | ns | ns | 3.31E-04 | ns | ns | |
| q36 | 8 | 10 394 725 | 10 857 858 | ns | ns | ns | ns | ns | ns | ns | 1.21E-04 | 1.34E-04 | 1.47E-05 | ns | ns | ns | ns | 3.02E-04 | ns |
| q37 | 8 | 11 754 971 | ns | ns | ns | ns | ns | ns | ns | ns | 2.76E-04 | 6.40E-05 | ns | ns | ns | ns | ns | ns | |
| q38 | 8 | 19 669 052 | ns | ns | ns | ns | ns | ns | ns | 4.47E-04 | 6.24E-05 | 5.10E-05 | ns | ns | ns | ns | ns | ns | |
| q39 | 8 | 24 667 998 | ns | ns | ns | ns | ns | ns | ns | ns | 4.36E-05 | ns | ns | ns | 3.81E-04 | ns | ns | ns | |
| q40 | 8 | 24 928 700 | 24 942 846 | ns | ns | ns | ns | ns | ns | ns | 6.22E-05 | ns | 1.27E-04 | ns | ns | ns | ns | ns | ns |
| q41 | 9 | 739 074 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | 5.24E-06 | ns | |
| q42 | 10 | 2 242 059 | ns | ns | ns | 4.56E-04 | ns | ns | ns | 6.78E-06 | 2.86E-07 | 4.09E-07 | ns | 4.94E-04 | 1.70E-04 | ns | ns | 1.37E-05 | |
| q43 | 10 | 2 618 906 | ns | 6.66E-05 | 4.46E-04 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q44 | 10 | 15 548 603 | ns | ns | ns | ns | ns | ns | ns | ns | 2.93E-05 | 6.42E-05 | 3.81E-04 | ns | ns | ns | ns | ns | |
| q45 | 11 | 22 356 921 | ns | ns | ns | ns | ns | ns | ns | ns | 2.87E-04 | 6.60E-05 | ns | ns | ns | ns | ns | ns | |
| q46 | 11 | 23 557 075 | ns | 6.33E-06 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q47 | 11 | 24 390 571 | ns | 5.53E-05 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q48 | 11 | 28 625 319 | 28 700 561 | ns | ns | 4.92E-05 | ns | 7.57E-05 | ns | 3.00E-04 | ns | ns | ns | ns | ns | ns | ns | 3.71E-04 | ns |
| q49 | 12 | 4 885 489 | ns | ns | ns | ns | ns | ns | ns | 9.27E-05 | 4.17E-04 | 1.15E-04 | ns | ns | ns | ns | ns | ns | |
| q50 | 12 | 13 430 242 | ns | ns | 9.61E-05 | ns | 1.37E-04 | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | ns | |
| q51 | 12 | 18 332 837 | ns | ns | ns | ns | ns | ns | ns | 1.99E-04 | 3.65E-04 | 7.60E-05 | ns | ns | ns | ns | ns | ns |
Position: Polymorphism positions are given with reference to the Os-Nipponbare-Reference-IRGSP-1.0 pseudomolecule assembly [34] An interval is given when several markers in LD have the same significance.
For each QTL, when a test of association with any trait is significant at P<1.0e-05, the pvalue of the tests of association with other traits (up to P<5e-04) is given in italics.