Special CBI Judge J T Utpat was transferred to Pune, after which the court hearing was adjourned till July 2.
Incidentally, last week, judge Utpat had reprimanded Shah's advocate for filing an exemption application without assigning any reason to it.
"Every time you are giving this exemption application without assigning any reason," judge Utpat had said.
The court had on May 9 issued summonses to Shah and other accused in the case, which had been transferred from Gujarat.
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Tulsiram Prajapati, an eye-witness to the encounter, was killed by police at Chapri village in Banaskantha district of Gujarat in December 2006.
Shah, who was then Minister of State for Home, was allegedly involved in the conspiracy behind both the incidents.