[Objectives] To establish a simple, rapid and accurate method for identifying the genetic relationship of hybrid rice varieties to their parents. [Methods] Taking F1 hybrids Liangyou 336, Deliangyou Huazhan, and the parents of Liangyou 336, i.e., C815S (♀) and R336 (♂), as experimental materials, the genetic relationship of the hybrid rice varieties to the parental materials was identified by way of PCR amplification with the 48 pairs of SSR primers of Protocol for Identification of Rice Varieties: SSR Marker Method (NY/T 1433-2014). [Results] The genetic relationship of the hybrid rice varieties could be determined by comparing the PCR amplification products of the mixed DNA of the parents and the DNA of the F1 hybrids. [Conclusions] This method not only reduced the number of samples required but also had a good visual effect and high accuracy.