Dissection of the Genetic Architecture of Rice Tillering using a Genome-wide Association Study

Rice

Table 1 The 23 LATNs and their rice genomic information

LATN	Name_of_Top-SNPs	SNP_Types	Chr.	Positions	p-value	Annotation	Reference
1	SNP-1.5635230.	A/G	1	5,636,231	1.04E-05	Novel_1	/
2	SNP-1.7037988.	C/G	1	7,038,989	2.95E-05	CCP1	(Yan et al., 2015)
3	SNP-1.16070366.	A/G	1	16,071,393	4.56E-05	Novel_2	/
4	SNP-1.18536011.	A/G	1	18,537,058	4.03E-06	Novel_3	/
5	SNP-1.36879662.	T/C	1	36,880,706	1.68E-05	Novel_4	/
6	SNP-1.37003809.	C/G	1	37,004,853	6.07E-07	Novel_5	/
7	SNP-1.37664127.	A/G	1	37,665,171	1.56E-09	REL1, MOC2, PLA2	(Chen et al., 2015),(Koumoto et al., 2013),(Kawakatsu et al., 2006)
8	SNP-3.1121412.	T/C	3	1,122,415	6.93E-10	OsDCL1	(Zhang et al., 2015)
9	SNP-4.19405464.	C/G	4	19,577,430	1.31E-05	OsAFB2,LAX2	(Xia et al., 2012), (Tabuchi et al., 2011)
10	SNP-4.33497579.	T/G	4	33,682,697	5.26E-05	MOC3, OsGS2	(Lu et al., 2015b), (Cai & Xiao, 2010)
11	SNP-5.7728359.	C/T	5	7,728,419	5.05E-07	Novel_6	/
12	SNP-5.18643585.	C/T	5	18,706,103	4.52E-10	Novel_7	/
13	SNP-7.12702296.	A/G	7	12,703,290	4.29E-05	Novel_8	/
14	SNP-7.16935997.	A/T	7	16,936,991	3.16E-07	Novel_9	/
15	SNP-8.19480736.	A/G	8	19,483,450	2.72E-05	PAY1	(Zhao et al., 2015)
16	SNP-8.22337472.	A/G	8	22,340,186	1.53E-08	Novel_10	/
17	SNP-8.26426233.	T/C	8	26,428,948	4.74E-06	OsPIN5b	(Lu et al., 2015a)
18	SNP-9.4181935.	T/C	9	4,182,936	8.20E-07	Novel_11	/
19	SNP-9.22712391.	A/T	9	22,712,873	5.89E-05	OsAHP2	(Sun et al., 2014)
20	SNP-10.504597.	A/G	10	505,622	1.13E-06	Novel_12	/
21	SNP-11.8537869.	A/C	11	8,543,260	1.60E-06	Novel_13	/
22	SNP-11.21947025.	A/C	11	22,413,155	3.33E-10	Novel_14	/
23	SNP-11.26432763.	T/C	11	26,904,377	1.02E-05	Novel_15	/