Rabies is one of the most harmful zoonotic diseases in the world, affecting both animal and human health. Each year, 55,000 people die from rabies: 56% of deaths are in Asia and 54% in Africa. In Indonesia, rabies cases (98%) are usually transmitted by dogs (domestic and wild dogs) (96.79%), cats (1.06%) and apes (0.15%). The aim of this study was to determine the homology score and predict the antigenic sites of the glycoprotein (G-protein) encoding gene from rabies virus in Indonesia using molecular analyses. G-protein gene from isolated samples was amplified using a two-step RT-PCR followed by sequencing. Results show that homology scores of Indonesian rabies virus isolates against reference virus isolates obtained from GenBank records are the following: Indonesia (93-98%), China (89-91%), Thailand (83-86%), India (82-84%), Korea (83-85%) and Pasteur strain (82-83%). Only antigenic site I of isolated sample from Sumatra changed, while antigenic sites II and VI remain unchanged. This suggests that another G-gene strain from a different region might exist in rabies virus isolated from Indonesia.