Rajinder Kumar's mutilated body, stuffed in a jute bag, was fished out of a drain here on Sunday, police said.
The victim's father has alleged that his daughter was being harassed for a long time for dowry by the accused.
UN Secretary-General Antonio Guterres is warning that without accelerated action 68 million girls could be subjected to female genital mutilation by 2030.
Study shows female genital mutilation widely practised among Bohras; evokes comparison with triple talaq
The study also points out that in the absence of a law, India could become a global hub for FGM, as many countries such as the US and Australia have seen arrests and convictions.
But before New Delhi could respond officially, Pakistan Army, promptly denied the incident and said it did not commit any ceasefire violation on LOC.