TABLE 3.

Suggested and associated SNPs with ewe composite traits at birth in Baluchi sheep.

Chr	SNP	Position	Genes in 300 kb interval	Analysis method	Adjusted P-value	Trait(s)	MAF
15	rs422482383	20,125,491	RDX, FDX1, ARHGAP20	pGWAS and eGWAS	2.06 × 10–5 3.34 × 10–6	PBW, TLWB and LMWB	0.11
15	rs423274340	20,304,472	ARHGAP20	pGWAS and eGWAS	6.43 × 10–5 8.20 × 10–6	PBW, TLWB and LMWB	0.10
15	rs428350449	19,740,174	ZC3H12C, RDX, FDX1	eGWAS	6.34 × 10–5	PBW, TLWB and LMWB	0.12
15	rs427207318	69,550,331	Without gene	pGWAS	8.43 × 10–5	LMWB	0.08
7	rs408063438	30,207,038	Without gene	pGWAS	9.37 × 10–5	PBW	0.01
7	rs399067974	32,062,261	ZCRB1, THBS1, FSIP1	pGWAS	9.37 × 10–5	PBW	0.01
7	rs400684038	35,113,511	ZNF106, SNAP23, LRRC57, HAUS2, STARD9, CDAN1, TTBK2, UBR1, TMEM62	pGWAS	9.37 × 10–5	PBW	0.01
23	rs430043751	46,167,308	EPG5, PSTPIP2, ATP5F1A, HAUS1, RNF165, LOXHD1	pGWAS and eGWAS	2.52 × 10–5 5.21 × 10–5	TLWB	0.06
6	rs426428997	109,147,722	Without gene	eGWAS	7.20 × 10–5	TLWB	0.05

Chr, Chromosome number; pGWAS, GWAS using phenotypes as response variable; eGWAS, GWAS using EBVs as response variable; PBW, Progeny Birth Weight; TLWB, Total Litter Weight at Birth; LMWB, Litter Mean Weight at Birth; MAF, Minor allele frequency. P-values are presented only for the first trait in the Trait(s) column. P-values are adjusted based on the Genomic Control value. Genes with boldface indicate that the significant SNP is located within the gene. SNPs with boldface are significantly associated with the genes but otherwise remain as suggestive SNPs. The regression coefficient of each SNP is provided in Supplementary Table 14.