The plane with a registered number of PK-IFP lost contact at 13:43 p.m. Jakarta time before crashing, said Ramli Prasetio, a press officer of Jakarta's search and rescue office.
"Three people were killed in the crash," he told Xinhua.
The plane operated by the Indonesian Flying Club departed from Tanjung Lesung coastal areas in Banten province and was heading to Pondok Cabe in Tanggerang, said Prasetio.
The cause of the incident is still unknown, but the officer said the weather condition was poor during the crash.