Far from an expert but I've done a decent job of housetraining pups over the years.
Since you bred her, was her mother like this? How are the other pups? That may help determine how much might be temperament-related.
Also. I'd have a vet exam done to make sure there are no problems.
But it sounds like she is scared, for whatever reason. I'd consult with a trainer as well to work on her confidence issues.
In the meantime maybe try crating her near the door and not asking anything of her until she has gone out. I definitely wouldn't drag her to the crate or yell at her until you know what's really going on. Only going to make it worse, IMHO.
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