Question about 1099R

My Financial advisor has me in two different account with the same Financial Institution. I withdrew more than my required RMD but only from one of the accounts. Hence, I only received one 1099R (from which funds were withdrawn). I decided to enter the other account 1099R info but receive an error message sent the distribution amount is zero dollars. If I have not received 1099R's from other smaller IRA accounts because I did not request any distributions how does the IRS know that I have taken all my required RMD for all my IRA's from my largest account? Is it an issue if I do not all my 1099R's listed on TurboTax? Should I just delete accounts I did not get distributions from? I don't want to because next year I may have to re-create them.