I'm using python and I have a wheat genome portion in .FASTA format (nucleotides).
I want to run BLAST against ENSEMBL and obtain genes annotations in .GFF3 programatically in order to use those items in a custom pipeline.
thank you in advance
My vision is:
1- Run BLAST with own sequences against ENSEMBL
2- Download .GFF files from ENSEMBL of the genome you're blasting
3- use blast results and translate GFF coordinates to your own .FASTA data