The clinic, at University College London, will provide medical and psychological treatment to girls.
Doctors will also carry out examinations if the police are not sure if mutilation has occurred, the BBC reported today.
FGM includes procedures that remove or injure female genital organs for non-medical reasons.
Dangers include severe bleeding, problems urinating, infections, infertility, mental health problems, complications in childbirth and increased risk of death for newborns.
The practice has been illegal in the UK since 1985 but the first prosecutions, which are currently ongoing, were not until this year.
Doctors at the clinic will also be able to take medical photographs of victims' injuries, give witness statements and testify in court.