Genetic diversity of dark-banded rockfish (Sebastes inermis) in wild and cultured stocks was examined by random amplified polymorphic DNA (RAPD) and mitochondrial DNA (control region) polymorphism analysis. Total of 46 polymorphic fragments were produced from 9 random primers, OPA-01, OPA-11, OPB-08, OPB-20, OPE-05, OPG-10, OPH-12, OPI-04 and OPI-20, with 7, 3, 6, 20, 6, 6, 10, 4 and 5 genotypes, respectively. Among OPB-08 depended polymorphic bands, 300 bp fragment appeared only in wild population at 61.3% frequency level, and suggested that this RAPD would be a useful marker for the discrimination of fish stock, wild or cultured, due to an effective parent number of each stock. In restriction fragment length polymorphism (PCR-RFLP) analysis of mtDNA control region with Mbo I and Xsp I, 8 mtDNA composite haplotypes were observed with different haplotype frequency and stock-specific haplotypes. It is expected that RAPD marker and mtDNA haplotypes identified in this study would be used as effective genetic monitoring tools in our ongoing stock enhancement program of Korea.