I'm trying to map human orthologs to the allotetraploid Xenopus Laevis. I've tried RBH Blast, and looked at a number of other Ortholog finding softwares; but, they all seem to work on finding a one-to-one relationships. This, is problematic for a Laevis, which has 2 copies of almost every gene. Can anyone recommend a workflow that is capable of handling many-to-one relationships, or have any bright ideas?
I've also tried Xenbase's manually curated human orthology, but I need ensembl ids. And converting from xenbase to entrez to ensembl is very messy.