He also suggested in Rajya Sabha that Congress, jointly with Left parties, had jumped into the issue "without giving prior thought" in view of the upcoming assembly elections in West Bengal.
Jaitley, a noted lawyer-turned-politician, defended the police entry into JNU, arguing that the campus was not a "sovereign territory" like some foreign embassy.
He contended that the developments of February 9 on JNU were "much more serious" as he read out the pamphlets carrying anti-India material which were circulated in the campus.
"The core question is, are we going to give respectability to those whose primary ideology is that they want to break this country," Jaitley said while intervening in the debate on 'Situation arising out of recent incidents in institutions of higher education with reference to JNU and University of Hyderabad'.
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He noted that being a mainstream party, Congress does not have the history of supporting the "fringe".
Jaitley agreed with Congress leader Ghulam Nabi Azad that two Congress Prime Ministers had fallen to the terrorists' bullets, a reference to Indira Gandhi and Rajiv Gandhi, and said "that precisely should have been the reason for you (Congress) to speak more vigorously against the offences in JNU. At least on this issue, we expected you to be with us."
Trinamool Congress leader Derek O'Brien took objection to this, reminding that his party was separate since 1998.
"Just because West Bengal elections is round the
corner, should the Congress party take a stand that police should not take enter University campuses," Jaitley said.
In an apparent reference to Rahul's visit to the JNU campus, the Finance Minister said that "some people think before they act but this was an incident in which Congress took their step first and thought about it later.
He also answered questions by opposition over BJP tying up with PDP which had spoken in favour of Afzal.
Both BJP and Congress had realised that they have to work with mainstream parties of Jammu and Kashmir to fight separatists, Jaitley said, while pointing out that both the parties have had alliance with NC as well as PDP at some point of time.
He asked the Congress to take a clear stance on the matter, he said these are the issues on which all parties should speak the same language.
In remarks laced with sarcasm, he said, "Vandalism is condemnable, but sedition is free speech?"
Jaitley also invoked B R Ambedkar, saying the maker of Constitution had warned of threats country faces from the inside.
Jaitley also criticised former Finance Minister P
Chidambaram without naming him, over his remarks in a write up that the case of Afzal Guru, who was hanged after being convicted in the terror strike on Parliament in 2001 "was perhaps not correctly decided".
With regard to questions over slapping of sedition charge, he cited a Supreme Court verdict delivered during the Prime Ministership of Jawharlal Nehru when a Communist leader had been convicted for a speech made against the Congress party.
At one point CPI leader D Raja asked what basis the government had for arresting JNUSU president Kanhaiya Kumar, the Finance Minister said since the matter is sub-judice, he would not want to speak of the evidence against him.
Earlier several parties, including Congress had criticised the government saying that it had punished someone for the crimes of the other.
He also emphasised that in case a student belonging to disadvantaged sections suffers mental disturbance, it needs to be addressed, comments made in response to opposition's concerns in the aftermath of Rohith Vemula's suicide.
Jaitley also made a reference to the protests earlier held in University of Hyderabad saying that while Yakub Memon had been lauded, though a picture of Ambedkar had been used in the background.
He also added that outsiders wearing masks had come to JNU when slogans against India were made.