Hope you are doing well!

AQA - ( All India Quota Government aided) it means the private colleges which are aided by the government and have government seats.

AQG- (All India quota Government) it means the medical colleges solely runs by the Government.

Yes, there is fee difference regarding the quota that is, in AQA you have to pay more than the govt quota but lesser than the management quota. In AQG , you only have to pay the fees as per the government quota.

Note:- There is different functioning systems in some states. So before opting any college check the fee structure as of the colleges in your state.

I hope that this might help you by clearing your doubt. If you have any further doubt feel free to ask.