Hello Dear

Yeah definitely it will going to affect your admission in the Government Institutions like IIT / NIT / CFTI colleges because as per the eligibility criteria you should have the score of atleast 75% + in your PCM category as well each subject should have the marks which should be more than the 50% . So overall if your JEE mains percentile is good then meanwhile you have to focus on your board as well.

All the best

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