Next generation sequencing gives an insight into the characteristics of highly selected breeds versus non-breed horses in the course of domestication

Table 3 Investigation of known variants affecting coat colors and color phenotypes associated with disease traits

Phenotype	ECA	Position	Gene	Associated genotype	Genotype Duelmener	Genotype Arabian	Genotype Sorraia	Genotype Hanoverian 1	Genotype Hanoverian 2	References
Chestnut/black	3	36,259,552	MC1R	C/T substitution: Ser/Phe	C/C	T/T	C/C	T/T	C/T	[14]
Chestnut	3	36,259,554	MC1R	G/A substitution: Asp/Asn	G/G	G/G	G/G	G/G	G/G	[20]
Bay/black	22	25,168,579	ASIP	11 bp deletion: frameshift	ref/ref	ref/ins	ref/ref	ref/ref	ref/ins	[14]
Grey	25	6,575,277	STX17	4.6 kb duplication	Not detected	Not detected	Not detected	Not detected	Not detected	[21]
Cream	21	30,666,626	SLC45A2	11 bp deletion: frameshift	Not detected	Not detected	Not detected	Not detected	Not detected	[22]
Champagne	14	26,701,092	SLC36A1	C/G substitution: Thr/Arg	G/G	G/G	G/G	G/G	G/G	[23]
Splashed white	16	20,117,302	MITF	11bp deletion-insertion	Not detected	Not detected	Not detected	Not detected	Not detected	[24, 25]
Splashed white	16	20,105,348	MITF	DelGTGTC	Not detected	Not detected	Not detected	Not detected	Not detected	[24, 25]
Splashed white	6	11,429,753	PAX3	C/T substitution	C/C	C/C	C/C	C/C	C/C	[24, 25]
Lavender foal syndrome (LFS)	1	138,235,715	MYO5A	1 bp deletion: frameshift/stop	Not detected	Not detected	Not detected	Not detected	Not detected	[10]
Lethal white foal syndrome	17	50,624,771	EDNRB	AG deletion-insertion: Ile/Lys	Not detected	Not detected	Not detected	Not detected	Not detected	[26]
Silver coat color, congenital eye disease	6	73,665,304	PMEL17	C/T substitution: Arg/Cys	C/C	C/C	C/C	C/C	C/C	[27]
Macchiato, hearing loss	16	20,103,081	MITF	T/C substitution: Asn/Ser	T/T	T/T	T/T	T/T	T/T	[24]

ISSN: 1471-2164