If you get the check or money in your account (instead of a direct plan-to-plan transfer), Turbotax will assume it is a taxable distribution until you get to the question where you are asked what you did with the money. There should be a box you can check for "I rolled it over into a different qualified account within 60 days" that will remove the tax. You have to tell Turbotax what you did, the program does not assume.
