Is longer homology arms better than short arms?
We find that inserting longer DNA fragments requires longer homology arms. Inserting up to 1 kb is normally not a problem with 50 bp arms, but to insert 2-4 kb fragments, you should consider longer arms, like 200-500 bp. For longer DNA fragments, you might need even longer arms. Of course, efficiency depends of the nature of the DNA, and in some cases short arms will work efficiently with even long DNA fragments.
