The present study was designed to investigate comparative expression of follicle-stimulating hormone beta subunit (FSHβ) and nuclear receptor coactivator 1 (NCOA1) genes by real-time PCR (RT-PCR), using Polymerase Chain Reaction-Single-Strand Conformation Polymorphism (PCR-SSCP) methods to investigate the effects of gene polymorphisms on reproductive traits including total number of kits born (TNB) and number of born alive (NBA) in pink eyed white mink. Four SNPs were identified in the FSHβ and NCOA1 genes. The g.1228G>A polymorphism of FSHβ was associated with NBA and TNB (P<0.01). The g.151536T>C polymorphism of NCOA1 was associated with NBA and TNB (P<0.01). NCOA1 mRNA levels in hypothalamus, ovary, and uterus during the first half of gestation were higher than during the middle term and last half of gestation (P<0.01). FSHβ mRNA levels in the hypothalamus and uterus were higher during the first half of gestation than during the middle term and last half of gestation (P<0.05). In conclusion, the g.1866T>C polymorphism of FSHβ and the g.151536T>C polymorphism of NCOA1 could be molecular markers for reproductive traits, and expression of FSHβ and NCOA1 might be involved in the regulation of embryo attachment mechanisms in pink eyed white mink breeding.