Well, technically human genetics is ALOT more complicated than that and Martian DNA, I don't even want to imagine how complex that would be. That's the simple answer.
You're assuming she has more control over her DNA then she may actually have. The transfusion was a medical experiment with unforeseen consequences (as Beast Boy's powers illustrate). The purpose of the transfusion was to just save Beast Boy's life. It wasn't meant to give him powers or turn his skin green, yet it did. The same logic can be used to explain Beast Boy's other powers.
While Miss Martian is a white martin and isn't a green martin, she spends most of her time in the form of a green martin. Maybe because she spends so much time as a green martin, that form is the dominate form in the DNA she gave Beast Boy. It's like exercising a muscle. The muscle you exercise the most is the strongest. For her the "metamorphic muscle" she exercises the most is her green martin form so that is the form that was dominate in the DNA she gave Beast Boy.
And while Miss Martian may not have the aptitude to take animal forms this does not mean she doesn't have the ability to become animals. Perhaps Beast Boy simply has the mental aptitude necessary to change into animal forms and that Miss Martin doesn't or maybe the combination of his DNA and Miss Martin is responsible or perhaps there was a third factor like the activation of a metagene. To me what makes this a good origin is the unpredictable and random nature of DNA. That's why this origin makes sense to me.
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