The head of state said in a speech in Lagos yesterday that Henry Okah, who headed the Movement for the Emancipation of the Niger Delta (MEND) had been tasked to carry out the assassination.
He alleged that Okah, whose group fought for a greater share of oil wealth in the 2000s, "was procured by some Nigerians to assassinate me".
"And Okah bombed Abuja. The attempt was to assassinate me," he told supporters of his ruling Peoples Democratic Party (PDP).
The charges related to twin bombings at celebrations of Nigeria's 50 years of independence on October 1, 2010, which killed at least 12 in Abuja, and two other bombings in the southern oil hub of Warri in March that year.
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"Intelligence investigation from South Africa intelligence system and Nigerian intelligence system roped him in that plan to assassinate me," Jonathan told the crowd.
Jonathan has never before said that he was the subject of an assassination plot and despite MEND's claim of responsibility for the attack, indicated that other forces were responsible.
He was responding yesterday to an apparent statement from the group, which was active in the oil-producing southern Niger Delta region until a government amnesty.