I'm trying to perform synteny alignments and plots for a gene of interest and its exons. I have two genomes in FASTA format and their corresponding annotations in GFF3 format.
Does anyone know some software that can help me with this? Ideally, I would like to visualize the alignment in synteny blocks, as well as highlight the exons and their positions in both genomes. Something similar to this:
Any help or advice would be greatly appreciated!