This study aimed to assess the genetic relationship of giant Muntjac sampmles from Museum Biology – Tay Nguyen Institute for Scientific Research and other Muntjac samples from Genbank. PCR was applied to amplify the cytochrome b (cytB) gene of these sample. The PCR products were used as the templates for sequencing. The results showed that there were 26 nucleotide variation positions, compared with other species (accounting for about 6% of the analyzed cytB sequences). There was one variable position in samples of Muntiacus vuquangensis at position 284. The phylogenetic tree showed that the giant Muntjac sample in this study located with other Muntiacus vuquangensis with 100 % bootstrap value.