The invention discloses a separating device of germs in wheat residue.The separating device includes a feeding inclining board; a separating board is arranged on a side of the feeding inclining board;a sliding lead screw is arranged on two sides over the separating board; a pushing board is movably connected with a side, close to the separating board, of the sliding lead screw; a gas ejector is sequentially communicated with an electromagnetic valve, an air bag, and an air pump; the air pump is fixedly connected below an installation top board through an installation frame.By removing a rolling plate, wheat grains are not rolled over; germs and wheat residue shells are subjected to simple shell-pulp separation firstly, so that subsequent throwing separation can be simpler; since the weight of normal germs and the weight of wheat residue shells are definitely different and germs are heavier, air blown out of an X-shaped hole can only push wheat residue shells upwards; since germs cannot be blown upwards, germs fall along a discharging hole to a collecting box.The practicability is great, and popularization is worthwhile.