You will enter the 1099R exactly as you received it.
After the 1099R entry you will say you rolled it over, and then it will ask all or part, and you will enter part rolled over.
TurboTax will then correctly compute the tax on the amount not rolled over. If this was an agent to agent transfer 100% of it would have to be rolled over and no 1099R would be received.
To enter pension and annuity Payments (1099-R)
- Click on Federal Taxes
- Click on Wages and Income
- Click on I'll choose what I work on (if shown)
- Scroll down to Retirement Plans and Social Security
- On IRA, 401(k), Pension Plan Withdrawals (1099-R),
click the start or update button
