DNA barcoding is a technique that helps in identification of species by using DNA sequences from a small fragment of the genome. In the present study, we used this technique to identify Dalbergia odorifera from its adulterants Five populations from different regions of Hainan province were selected and psbA-trnH, rbcL nuclear ITS and ITS2 sequences were amplified from twenty-four samples using PCR. Sequence amplification and sequencing efficiency of the samples was compared.We used BLAST1 and building system clustering tree method by NJ to determine interspecific and intraspecific variations. Our results showed that ITS2 had the highest amplification and sequencing efficiency among all the studied materials, while ITS had lower amplification efficiency. The complete sequence of ITS2 demonstrated greater advantages in distinguishing different strains of Dalbergia odorifera. Our study demonstrated the efficacy of ITS2 to distinguish between Dalbergia odorifera and other adulterants species at the molecular level.