Variants in several genes are known to confer increased susceptibility to breast cancer, but the frequencies of these mutations in the population are very rare and different between race or ethnic groups. Genetic variation in trinucleotide repeat containing 9 (TNRC9) and the hypothetical gene LOC643714 (TNRC9/LOC643714) is a newly described risk factor for breast cancer. Here, we investigated the association among the three single nucleotide polymorphisms (SNPs) in TNRC9/LOC643714 and breast cancer risk and clinico-pathological parameters in a hospital-based Chinese population. Genomic DNA was extracted from peripheral blood lymphocytes. Polymerase chain reaction-ligation detection reaction was used to genotype 321 breast cancer cases and 330 controls. In addition, the representative polymerase chain reaction products were subjected to direct DNA sequencing to confirm the accuracy of this method. The odds ratios and 95% confidence intervals were calculated by an unconditional logistic regression model. There was no significant association between the risk of breast cancer and three SNPs of TNRC9/LOC643714 gene polymorphisms and their haplotypes. No significant correlation was found between the TNRC9/LOC643714 polymorphisms and age at diagnosis, lymph node metastases, estrogen receptor status, or progesterone receptor status, respectively. None of these three SNPs of TNRC9/LOC643714 gene is associated with individual susceptibility to breast cancer in Chinese women.