Hybridization between species of the genus Juglans is common because of weak reproductive isolation mechanisms between closely related species with sympatric distributions. In this research, we investigated the possibility of naturally occurring interspecific hybrids between two species in the genus Juglans: persian walnut (Juglans regia) and chinese walnut (Juglans cathayensis). We used 12 pairs of microsatellite markers to analyze introgression between the two species. All amplified microsatellites were polymorphic in the two species. The result of Bayesian admixture analyses showed that introgression between the two species is rare; only three of nine individuals tentatively identified as hybrids, based on intermediate morphological characteristics, were defined as mixed genotypes. The other six putative hybrids and 156 morphologically pure individuals showed no sign of introgression.