How to identify corresponding chromosomes and coordinates of a species for query genes from a another species

Question

[majeedaasim]

I have a list of genes from species A and reference genome and gff3 of species B. I want to know homologous genes of species A genes in species B. I am specifically interested in knowing the chromosomes and coordinates.

[Glubbdrubb]

I would blast the genes from A against the B genome, then use the coordinates to identify genes in the GFF file. I have a python script that does this using Biopython and gffutils.