Line 4a on you 1040 will show the full amount reported on the 1099-R.
Line 4b should show only the taxable amount (i.e., the total distributions from all IRAs less the QCD). This is the benefit of a QCD because your taxable income is reduced.
Note that you are allowed to make excluded QCD distributions only if you are at least 70 1/2 by the end of the tax year.
Also note that you can make QCD distributions only from a traditional or inherited IRA.
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