Zucchini seeds

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Hi all! I have planted zucchini seeds in shallow cups with about 3 inches of soil. now they have germinated and the top of the seed has pushed thru to the top of the soil, and i can see huge roots along the bottom of the container. When I repot them into something bigger should i do so with the seed fully buried, or having it peek out the top as it is now? Thanks!
 

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