You are correct. If you entered the mortgage interest and real estate taxes, in full, into the rental section and provided all of the rental allocation information (number of days personal use, etc.), then TurboTax will allocate the mortgage interest and real estate taxes between Schedule E (for the rental portion) and Schedule A (Itemized Deductions).
So, in the personal section of TurboTax, you would not enter anything regarding the home mortgage interest.