The girl was allegedly abducted from her house on December 31 by constables Veer Pal Singh Yadav and Avnish Yadav, police said today.
She was taken to Musajhag Police Station and allegedly raped there, Superintendent of Police (City) Lallan Singh said.
An FIR was registered after the victim's mother lodged a complaint against the two policemen, who are absconding.
The two cops have been suspended and police are trying to trace them.
Giving details of the alleged incident, the victim said, "At 8 PM I informed my mother and went for relieving myself. I saw a car there and two constables. They told me to come into the car and then took me away. "They took me to a room in the police station where they assaulted me...They then dropped me to my village."
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Yadav ordered that a senior police officer be rushed from the headquarters to coordinate with the Badaun police for effective investigations, an official spokesman said.
Taking cognizance of the incident, the Chief Minister has already instructed immediate suspension of the two constables who are absconding, he added.
Terming the incident as "unfortunate", Maneka Gandhi said the rape crisis centre was a necessity for the district and it would be set up in the coming months.
Musajhag Police Station, where the minor was raped, fall in Aonla, the former Lok Sabha constituency of Maneka Gandhi.