Table 4.

QTL identified for milk mineral and citrate content on Bos taurus (BTA) autosomes 11 to 29 (when a QTL affected multiple traits, the most significantly affected trait is indicated in bold).

Region	QTL	Trait	BTA	Confidence Interval of the QTL				Variant with the most significant effect (frequency p and effect b of the ALT allele)
				From (bp)	To (bp)	# variants	# genes	Position (bp)	ID	p	R2	−log10P	b	SE	Name of gene(s)	Impact
27	51	K	11	13,798,363	15,368,263	563	7	14,405,285	rs110177775	0.102	0.96	10.3	8.04	1.22	–	Intergenic
28	52	Citrate	11	103,239,082	103,277,147	279	5	103,244,306	rs435710868	0.514	0.85	23.9	0.21	0.02	ENSBTAG00000048091	Downstream
28	53	P	11	103,239,082	103,277,147	278	6	103,250,796	rs379692402	0.473	0.72	25.0	− 11.8	1.13	–	Intergenic
29	54	Na	12	68,052,340	69,715,887	87	7	68,475,505	rs133520200	0.257	1.00	9.2	− 2.91	0.47	–	Intergenic
30	55	Na	12	73,666,737	73,725,910	47	1	73,674,445	rs136814628	0.680	0.99	8.5	2.53	0.43	HS6ST3	Intron
31	56	K	13	54,405,085	54,637,805	45	8	54,431,192	rs133004626	0.623	0.95	10.2	− 6.48	0.99	–	Intergenic
32	57	Citrate	14	238,942	613,906	35	15	453,437	rs384162250	0.512	1.00	11.0	0.10	0.01	PPP1R16A	Upstream
32	58	K	14	232,311	639,312	79	20	515,185	rs460225555	0.501	0.96	14.8	5.60	0.70	VPS28	Downstream
32	59	P	14	271,581	758,897	64	20	577,322	rs133788084	0.212	0.21	13.8	12.6	1.64	FBXL6	Upstream
32	60	Ca	14	284,571	700,497	27	7	666,982	rs133196323	0.025	0.34	13.0	32.2	4.31	MROH1	Intron
33	61	Na	15	52,059,631	52,851,538	466	6	52,461,335	rs210668186	0.218	0.60	9.2	− 2.65	0.43	FCHSD2	Intron
34	62	K	17	50,508,807	50,988,913	227	6	50,825,796	rs474259058	0.055	0.95	21.3	15.1	1.56	BRI3BP	Intron
35	63	Ca	18	10,563,963	10,833,324	11	4	10,833,324	rs137549452	0.045	0.91	11.3	− 12.9	1.86	KLHL36 / COTL1	Upstream / Upstream
36	64	Ca	19	56,448,441	56,609,243	340	8	56,524,233	rs207749796	0.335	0.87	16.1	7.39	0.89	FADS6	Intron
37	65	Na	19	60,550,831	60,870,548	95	2	60,555,853	rs435138644	0.783	0.61	23.6	4.40	0.43	–	Intergenic
37	66	Ca	19	60,009,085	60,870,548	41	1	60,561,566	rs41923848	0.843	0.73	11.2	− 7.19	1.05	–	Intergenic
38	67	Ca	20	31,888,449	31,888,449	1	1	31,888,449	rs385640152	0.009	0.91	17.0	− 25.1	2.92	GHR / LOC112443004	Missense / lncRNA
39	68	Mg	20	31,888,449	31,888,449	1	2	31,888,449	rs385640152	0.009	0.91	13.9	− 1.85	0.24	GHR / LOC112443004	Missense / lncRNA
39	69	P	20	31,888,449	31,888,449	1	1	31,888,449	rs385640152	0.009	0.91	10.3	− 17.0	2.59	GHR / LOC112443004	Missense / lncRNA
40	75	Ca	20	58,185,895	58,207,145	21	1	58,189,663	rs110048176	0.170	1.00	25.3	13.1	1.24	ENSBTAG00000048498	lncRNA
40	76	Mg	20	58,185,895	58,388,462	65	3	58,189,663	rs110048176	0.170	1.00	117.2	2.34	0.10	ENSBTAG00000048498	lncRNA
40	77	Citrate	20	58,185,895	58,388,462	81	3	58,204,929	rs109956167	0.166	0.90	187.2	0.73	0.02	ENSBTAG00000048498	lncRNA
40	78	K	20	58,185,895	58,388,849	69	2	58,386,888	rs134021638	0.054	0.92	26.3	17.4	1.61	ANKH	Intron
41	81	Citrate	20	63,223,010	64,759,735	87	2	63,223,010	rs109390768	0.595	0.98	14.9	0.14	0.02	–	Intergenic
41	82	Mg	20	63,223,010	64,753,386	13	1	63,223,010	rs109390768	0.595	0.98	9.0	0.47	0.08	–	Intergenic
42	85	Mg	21	39,683,083	41,254,513	144	2	39,933,138	rs134950504	0.070	0.99	9.3	− 0.85	0.14	–	Intergenic
43	86	P	22	28,516,349	30,130,198	35	3	30,130,198	rs108953480	0.966	0.90	8.6	11.4	1.92	FOXP1 / ENSBTAG00000052330	Upstream / lncRNA
44	87	P	22	32,774,174	32,787,867	10	2	32,786,684	rs208411747	0.040	0.92	20.6	− 14.5	1.53	FAM19A4	Intron
44	88	Mg	22	32,772,562	33,329,180	45	4	32,786,854	rs209198296	0.046	0.82	13.3	− 1.03	0.14	FAM19A4	Intron
45	89	K	24	49,837,381	50,315,415	274	8	50,074,695	rs448650804	0.324	0.61	11.1	5.18	0.76	–	Intergenic
46	90	P	24	58,272,345	58,396,158	102	4	58,306,855	rs380879212	0.362	0.56	12.8	5.26	0.71	LMAN1	Intron
47	91	Ca	25	20,480,835	20,482,817	2	1	20,480,835	rs109069510	0.888	0.99	8.4	− 8.01	1.36	HS3ST2	Intron
48	92	Mg	27	36,511,563	36,592,556	65	6	36,522,002	rs378026790	0.488	0.96	15.2	0.63	0.08	GPAT4	Upstream
49	93	K	28	6,518,121	6,534,988	2	2	6,518,121	rs42033936	0.224	0.98	13.0	− 6.44	0.86	KCNK1	Intron
49	94	Na	28	5,987,406	6,889,024	58	3	6,518,121	rs42033936	0.224	0.98	10.8	− 2.70	0.40	KCNK1	Intron
50	95	Ca	29	9,193,304	9,907,275	162	7	9,517,882	rs380735416	0.163	0.41	13.1	8.67	1.16	PICALM	Upstream
50	96	Na	29	8,731,208	10,144,903	486	11	9,923,696	rs385315120	0.166	0.87	14.8	− 4.28	0.54	TMEM126B	Downstream