Kohli was dismissed on 40 in the 26th over off the bowling of Stokes in India's run chase but while walking back to the dressing room, the visiting batsman apparently heard something said by the pacer. Kohli retorted by raising his bat for a few seconds towards Stokes.
The Indian, however, moved on towards the boundary line and did not turn back though it was clear from his body language that he was not happy with what he had heard. Reports said that Stokes provoked Kohli and television replays showed the England pacer saying something towards the Indian though it was not known what he said.
On-field umpires Michael Gough of England and Paul Reiffel of Australia called home side captain Alastair Cook and Stokes after the incident.
India thrash England by six wickets today to take an unassailable 2-0 lead in the five-match ODI series.
The five-match Test series, which preceded the ODI contests, was also marred by an ugly spat between Indian all-rounder Ravindra Jadeja and England pacer James Anderson during the first Test at the same venue here.
Anderson was today booed by the seizable Indian supporters who turned up to watch the third ODI at Trent Bridge here.