There is no special code on the 1099R for a Qualified Charitable Distribution - it is up to you to report the portion of your distribution that meets the rules to be not taxed as a qualified charitable distribution.
To report your qualified charitable contribution, you would simply report the 1099R as issued to you, but then the taxable amount would be adjusted to eliminate the portion used for as a Qualified Chartable Distribution. The gross distribution of the IRA will show on the front of the 1040 form for IRA distributions; however the line for taxable amount should show "QCD" and the portion used for the QCD should not be included in the taxable amount line.
Remember you cannot claim these charitable contributions as an itemized deduction on Schedule A for the amount you are reporting as a QCD.
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