Taxonomically Phalanger sp. or cuscus is a member of the Phalangeridae family, this animal has a distribution that is widely found in eastern Indonesia, has endemic status, its existence is legally protected because it is often hunted and consumed for food by the surrounding community. The study of molecular biology is one of the efforts in the management of cuscus conservation in Indonesia, namely by completing the database and molecular information in the Gene Bank so that later it is hoped that it can be used to trace kinship relationships. The aim of the study was to identify Phalanger sp. from Papua molecularly using COX1, ND4L, and 12S rRNA sequences. The methodology used is DNA isolated from blood samples of Phalanger sp. as template DNA in the amplification process by PCR. This study used 12S rRNA primers. The results showed that 12S rRNA could be used to identify Phalanger sp. while the COX1 and ND4L sequences have not been successfully used to identify Phalanger sp