Armenia is hosting the commemoration for those killed by Ottoman forces in World War I in its capital on April 24.
"Yes, he will fly to Yerevan," Putin's spokesman Dmitry Peskov told AFP, adding the Russian leader had discussed the issue with his Armenian counterpart Serzh Sarkisian by telephone today.
Armenia says an estimated 1.5 million people were killed by Ottoman forces in 1915 in what it calls a genocide.
But modern Turkey has always rejected the term "genocide", putting the toll at 500,000 and blaming their deaths on war and starvation.
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News of Putin's call to Sarkisian comes as speculation he is ill swirls online after he cancelled a number of meetings.
Peskov dismissed the claims, chalking up media reports of the leader's ill-health to "March madness."
Armenia is Russia's most loyal ally in the Caucasus.
However ties have been strained since January when a Russian serviceman killed a family of seven in Armenia, sparking mass protests.