A total of twenty microsatellite loci included dinucleotide, trinucleotide, and tetranucleotide microsatellite loci were isolated for Sinopotamon yangtsekiense using the FIASCO protocol. Genotyping of 30 individuals showed that the number of alleles ranged from 2 to 22, with observed heterozygosity ranging from 0.103 to 0.900 and expected heterozygosity ranging from 0.100 to 0.957. The polymorphism information content per locus ranged from 0.093 to 0.932. Cross-species amplification was investigated in seven related taxa. The results suggested that the developed microsatellite loci are specific to Sinopotamon and have potential for limited use in cross-genus amplification within Potamidae. These microsatellite markers should prove valuable tools for population genetic studies of the species Sinopotamon.