Primers

... site will be probably conserved, while some loops on surface of the protein will be divergent. Both on DNA and amino acid level. You can design primers on the divergent regions and then they will be species-specific, because they will bind to the sequence of only one species. On the other hand, ...

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You see, that's exactly were will you use the unspecific primers. Since we don't know the similarities between human and yeast cdcs, it's little hard to make any conclusion, but probably the plant cdc is the most distant one.

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... aligned the predicted amino acid sequences of human cdc2, S. pombe cdc2, and S. cerevisiae cdc28 genes. Degenerate oligonucleotide PCR primers corresponding to the boxed amino acids were generated and a DNA fragment of the expected size was synthesized by PCR using these primers and ...

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"what i don't know is why the exact same primers that target the same location end up a different areas." I don't think that the same primers that target the same location do end up in different areas. The difference in the masses of the ...

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... genome; the VNTR's within each region, and that is how 12 distinct bands can be detected after PCR. But what i don't know is why the exact same primers that target the same location end up a different areas. Yours, Julian

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