The accused was identified as Mashiur Rahman, 27, of Chandrapur village in the upazila.
Police said Mashiur abducted the girl when she was going for private tuition at 7 am and raped her in a bamboo orchard.
Later, locals rescued the girl after hearing her scream when Mashiur fled.
Officer-in-Chare of Kaliganj Police Station Arju Md Sajjad Hossain said the victim was sent to Sadar Hospital for a medical test.
Also read: Bangladesh introduces death penalty for rape