Q about germed seed

So I have a few seeds that were germing in paper towel. I went out of town for a few days, just got back. Anyways the seed coat on a few of them fell off... do I still plant the whole thing under the soil or just the root? Reason I ask is cause I can clearly tell these are the cotyledon so I wasn’t sure if they need to be under the soil since they haven’t fully opened up...
 
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