Table 2.

Summary of the identified candidate regions and important genes of six biological phenotypes. For each phenotype, the candidate genes shown in bold were newly identified in this study while the un-bolded were reported previously

Phenotype	Chr	Candidate region	Type	Candidate genes
Coat color	8	40,162,068-43,262,938	SNP	KIT, PDGFRA, KDR
	8	46,403,615-48,403,616	SNP	RAPGEF2
	13	44,164,643-46,177,438	SNP	ADAMTS9, ATXN7
	8	40,156,302-42,630,783	InDel	KIT, PDGFRA, KDR
	8	45,117,702-49,266,658	InDel	RAPGEF2, PDGFC
	13	44,164,516-46,164,570	InDel	ADAMTS9, ATXN7
	7	56,026,800-58,031,600	CNV	CSPG4, PEAK1
	8	40,222,800-42,784,000	CNV	KIT, PDGFRA, KDR
Ear shape	5	29,390,982-31,646,769	SNP	MSRB3, HMGA2, WIF1, LEMD3, GRIP1
	7	29,294,596-31,559,390	SNP	PPARD, TEAD3, TULP1, BAK1
	5	29,444,163-31,682,975	InDel	MSRB3, HMGA2, WIF1, LEMD3, GRIP1
	7	29,303,723-31,303,724	InDel	PPARD, TEAD3, TULP1, BAK1
	5	28,826,400-30,866,000	CNV	MSRB3, HMGA2, WIF1, LEMD3, GRIP1
Body height	7	29,294,596-31,458,775	SNP	PPARD, SCUBE3, HMGA1, TEAD3, TULP1, GRM4, NUDT3, RPS10, PACSIN1, SPDEF
Body length	3	93,189,763-95,189,764	SNP	PRKCE
	7	29,332,971-31,332,972	SNP	SCUBE3, HMGA1, GRM4, NUDT3, RPS10, PACSIN1, SPDEF
	3	93,166,180-95,166,181	InDel	PRKCE
Body weight	1	264,450,139-266,536,416	SNP	NR6A1
	2	71,760,896-74,331,103	SNP	ALKBH7
	4	74,356,597-76,411,729	SNP	PLAG1
	8	11,996,794-13,996,795	SNP	LCORL
	17	16,190,245-18,190,246	SNP	PLCB4
	X	89,361,633-91,410,843	SNP	ACSL4
	1	264,516,132-266,534,178	InDel	NR6A1
	2	71,953,098-73,953,099	InDel	ALKBH7
	4	74,366,801-76,390,440	InDel	PLAG1
	15	108,303,388-110,303,389	InDel	PARD3B
	X	89,368,172-91,402,512	InDel	ACSL4
Gradient zone	5	92,898,692-94,907,622	SNP	KITLG
	8	40,286,000-42,286,001	SNP	KIT, PDGFRA, KDR
	11	49,086,896-51,103,489	SNP	EDNRB
	11	61,719,059-63,719,060	SNP	DCT
	5	92,904,398-94,906,740	InDel	KITLG
	11	49,076,945-51,087,682	InDel	EDNRB
	13	49,358,504-51,358,505	InDel	MITF