Genome-wide association mapping for root cone angle in rice

Rice

Table 5 Markers significant in the GBS japonica panel

Marker	QTL	Chr	Position1	Position2	Posterior probability	p-value	q-value	Number obs. minor allele
S01_23183181	qj01–1	1	23 183 181	23 351 413	0.65	3.76E-05	0.07	6
S01_27104121	qj01–2	1	27 104 121	27 146 133	0.55	8.36E-05	0.11	8
S02_14095794	qj02–1	2	14 095 794		0.54	2.31E-04		6
S02_32333192	qj02–2	2	32 333 192	32 457 973	0.57	1.89E-04		6
S05_21144094	qj05–1	5	21 144 094		*0.01*	3.15E-06	0.03	5
S05_24706117	qj05–2	5	24 706 117	24 734 678	*0.01*	1.33E-05	0.05	5
S06_00185125	qj06–1	6	185 125		*0.01*	4.06E-05	0.07	8
S06_21685315	qj06–2	6	21 685 315		0.71	3.03E-05	0.07	14
S06_28055840	qj06–3	6	28 055 840		0.77	2.51E-05	0.07	13
S07_15566174	qj07–1	7	15 566 174		0.71	8.22E-05	0.12	6
S07_27048508	qj07–2	7	27 048 508	27 051 011	0.59	9.12E-05	0.11	9
S07_27060189		7	27 060 189		0.66	4.61E-05	0.07	8
S08_03918947	qj08–1	8	3 918 947		0.86	2.53E-06	0.04	12
S09_17835213	qj09–1	9	17 835 213		0.54	1.55E-04		16
S10_23032257	qj10–1	10	23 032 257		*0.01*	9.02E-06	0.05	12
S11_03638312	qj11–1	11	3 638 312	3 667 586	0.64	1.68E-04		8
S11_23650929	qj11–2	11	23 650 929		0.73	2.41E-05	0.08	5

In bold, marker significant in the intial analysis; in italic initial probability of the markers only significant through sub-sampling. Position1-position 2: limits of intervals including significant markers in complete LD