Big Apple prosecutors will petition the Supreme Court to restore a murder conviction for the former bodega clerk found guilty in the 1979 disappearance of 6-year-old Etan Patz — after a federal appeals court shockingly overturned the verdict in July.

The Manhattan District Attorney’s office asked the 2nd US Circuit Court of Appeals to hold off on enforcing its decision to overturn the verdict in the case of Pedro Hernandez, according to a court filing Sunday obtained by The Post. 4

When overturning his conviction, a three-judge 2nd Circuit panel ordered that Hernandez — who was serving a sentence of 25 years to life in state prison — be freed unless he’s put on trial for a third time “within a reasonable period.”

The ruling, however, presents “substantial legal questions,” prosecu

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