[Please accept my apologies if this is already posted here, as I cannot seem to locate.]
I have a set of mouse protein IDs (ensembl)+ amino acid positions, and I would like to know the corresponding amino acid position in the human ortholog.
I was wondering if there is any standard resource, or programmatic approach I can retrieve this information.
What I have tried so far:
UCSC table browser to retrieve multiz alignments in CDS fasta format. The results do not seem very helpful as amino acid numbering doesn't seem to be trivial form the output.
BLASTP from NCBI portal. While this likely has all the necessary information, I am not sure how to automate this. I am planning on looking into biopython to handle this.
I am aware that different protein isoforms need to be considered here as well.
Any pointers/ideas will be appreciated.