Table 5.

The location of the most significantly dimorphic SNPs, limited to the top 5, which were associated with the skeletal traits in the CH

							Male		Female
Trait1	Chr	Start	End	No. of dimorphic SNPs	Most significantly dimorphic SNP	Updated position of most significantly dimorphic SNP (ARS−UCD 1.2)	Allele frequency	Allele effect (SE)	Allele frequency	Allele effect (SE)	Significance of dimorphism
WH	7	967,167,29	97,718,351	3	97,483,338b	94,984,764	0.213	−0.08 (0.02)	0.254	0.09 (0.02)	1.50 × 10−6
	10	75,208,550	77,306,612	5	75,708,579a	75,395,884	0.029	−0.13 (0.05)	0.028	0.28 (0.07)	5.89 × 10−6
	17	34,267,907	35,272,234	15	347,70,503a	34,374,526	0.120	−0.09 (0.03)	0.113	0.14 (0.04)	1.64 × 10−6
	19	33,223,631	34,225,743	6	33,723,631b	33,122,406	0.451	0.03 (0.02)	0.499	−0.11 (0.03)	5.95 × 10−6
	29	29,284,867	30,316,330	11	29,807,810a	29,436,465	0.246	0.03 (0.02)	0.170	−0.16 (0.03)	1.46 × 10−6
BL	1	60,942,796	62,141,649	4	61,529,004a	60,977,668	0.020	0.08 (0.06)	0.008	−0.76 (0.14)	5.31 × 10−8
	8	65,823,397	67,021,631	17	66,520,586bc	66,036,297	0.014	0.24 (0.07)	0.014	−0.39 (0.11)	7.09 × 10−7
	11	67,394,139	68,443,814	13	67,936,368b	67,962,565	0.039	0.11 (0.04)	0.033	−0.29 (0.07)	1.18 × 10−6
	12	66,787,629	68,105,969	3	67,354,072a	66,817,243	0.005	0.19 (0.11)	0.003	−1.24 (0.22)	6.64 × 10−9
	26	16,741,492	17,746,984	6	17,242,026b	17,376,909	0.198	−0.06 (0.02)	0.196	0.14 (0.03)	2.43 × 10−7
HW	1	71,113,538	72,230,151	34	71,680,557a	71,071,338	0.007	−0.18 (0.09)	0.003	1.09 (0.24)	7.09 × 10−7
	1	15,460,935	151,629,392	5	150,960,935c	*	0.031	0.11 (0.05)	0.046	−0.29 (0.06)	1.96 × 10−7
	7	78,851,675	79,854,739	3	79,352,226a	77,071,480	0.027	−0.09 (0.05)	0.013	0.49 (0.11)	9.91 × 10−7
	19	41,254,273	42,757,991	23	42,257,563c	41,624,383	0.127	−0.09 (0.02)	0.116	0.14 (0.04)	1.32 × 10−6
	23	40,292,666	41,337,462	14	40,792,666d	41,014,434	0.044	0.13 (0.04)	0.052	−0.21 (0.06)	1.49 × 10−6
CW	2	39,826,441	43,069,032	11	42,375,687d	*	0.003	0.46 (0.38)	0.002	−5.30 (0.71)	1.01 × 10−12
	8	24,830,532	26,713,234	9	29,877,151a	29,907,983	0.015	−0.03 (0.18)	0.008	−3.34 (0.36)	4.44 × 10−16
	9	21,416,858	24,598,647	19	21,916,858a	21,654,494	0.007	0.21 (0.26)	0.003	−4.10 (0.52)	1.66 × 10−13
	14	5,222,811	6,612,129	22	6,528,804a	5,500,130	0.010	0.50 (0.23)	0.006	−3.14 (0.43)	4.49 × 10−14
	28	0	865,080	17	365,080a	1,347,377	0.006	0.62 (0.28)	0.003	−4.79 (0.63)	6.66 × 10−15
CD	2	78,501,288	79,652,702	7	79,001,288a	78,633,046	0.005	0.29 (0.27)	0.002	−3.88 (0.56)	2.50 × 10−11
	6	22,501,427	30,700,058	17	29,804,490a	28,380,999	0.006	0.17 (0.28)	0.003	−4.13 (0.57)	1.55 × 10−11
	17	20,292,176	22,351,653	28	20,871,130a	20,556,557	0.016	0.01 (0.18)	0.008	−2.36 (0.30)	1.22 × 10−11
	19	5,471,820	6,722,162	11	6,222,162a	6,015,594	0.013	0.15 (0.19)	0.008	−2.41 (0.33)	1.32 × 10−11
	20	68,770,623	70,729,278	50	70,127,722a	*	0.002	0.23 (0.46)	0.002	−5.16 (0.57)	2.42 × 10−13

¹WH, wither height; BL, back length; HW, hip width; CW, chest width; CD, chest depth.

^aIntergenic variant.

^bIntron variant.

^cDownstream gene variant.

^dUpstream gene variant.

*SNP has not been mapped on the latest build