The accident occurred in Palaw Township of Myeik District in Tanintharyi Region, around 9:15 p.m. local time on Sunday, Xinhua news agency reported quoting the official.
The accident was caused by a strong whirlpool, which flipped the ferry, he added.
"We are having difficulty obtaining further information due to poor weather conditions and internet connectivity in the area," he said.
The number of deaths and missing persons may increase as rescue and search operations are still underway, he added.