Mark exons and introns in Querey based on NCBI graphics

Question

[Human]

How can quickly mark the parts of my query which resemble the exons and introns of the gene within the Sequence I am comparing my query to? I would like to create a Fasta file in which I can destinguisch the exons and introns eventually.

Answer 1

[Trivas]

You can download individual gene FASTAs with exons as capital letters and introns in lowercase from UCSC. Not sure how many genes you want to do this for as it's very low throughput.