Genome-wide association studies of fertility and calving traits in Brown Swiss cattle using imputed whole-genome sequences

Table 3 Missense and nonsense variants that were significantly (p < 5*10⁻⁹) associated with calving traits

Trait	BTA	Position	p-value	Gene	Variant	PolyPHEN2	SIFT
CEd	25	1,277,577	5.59 × 10⁻¹⁰	CRAMP1L	p.R885Q	probably damaging	deleterious
CEd	25	1,177,995	1.93 × 10⁻⁹	TELO2	p.R536W	probably damaging	deleterious
CEd	25	1,161,904	4.05 × 10⁻⁹	PTX4	p.P207L	probably damaging	tolerated

Trait: CEd calving ease direct
BTA: Chromosome
P-value: From GWAS with EMMAX
Variant: Amino acid change caused by the variant
PolyPhen2: predicted effect of the variant on the protein function from PolyPhen2
SIFT: predicted effect of the variant on the protein function from SIFT obtained via Variant effect predictor (VEP)
* : Translation stop codon

ISSN: 1471-2164