BJP on the other hand accused Congress of giving communal colour to a national security issue.
Hitting out at BJP for its politics of "polarisation and communalism", Congress said that the new development had proved right Rahul's comments made at a public rally in October last that Pakistan's ISI was working to lure the riot-hit.
"Pakistan's ISI and India's BJP rejoice whenever there is communal trouble in India. ISI wants money from Muslims countries in the name of helping Muslims here. So they earn money. Whenever there is communal disturbance, BJP gets vote," Congress spokesperson Shakeel Ahmed said.
BJP demanded a thorough probe in the matter and accused Congress as well as Samajwadi Party, which rules UP, of doing "religion-based politics".
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"The home minister for the first time in the history of India has come out with the names of victims on the basis of their religion. It clearly shows the Centre and state governments are trying to do religion-based politics," party spokesperson Sudhanshu Trivedi said.
BJP President Rajnath Singh said the whole issue should be thoroughly probed with all the seriousness the matter deserves.
Rahul's remarks had drawn flak from several quarters, with BJP Prime Ministerial candidate Narendra Modi demanding he should apologise for making such remarks against Muslim youths.
RSS also weighed in on the issue, accusing Centre of being "miserable failure" in containing cross-border terrorism. Its spokesperson Ram Madhav today said it was shocking that a Pakistan-based terror outfit could have a free access in India.