The dignitary was received with 'Purna Kumbham', the temple sources said.
Clad in a 'kasavu mundu', the traditional Kerala attire, Kovind spent about half-an-hour at the shrine.
He gave ghee as offering to Lord Krishna, they said.
There was heavy security at the temple complex during the Kovind's visit.
'Purna Kumbham' literally means a full vessel and symbolically it is a sign of plenty.
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