Google India has blocked the offensive anti-prophet video that was up on YouTube.
Malaysian authorities want the clip removed from YouTube because of the "explosive commotions and repercussions at hand".
US embassies have been stormed by protestors enraged over depiction of the Prophet Mohammad as a fraud and philanderer.
The J&K government said such acts are aimed at causing discord among the people of different faiths.
In a televised speech, Clinton stressed that the US government has nothing to do with the video.
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