extract UTRs regions from gff file

Question

[Frieda]

Hello,

I have a gff file with annotation for gene, mRNA, CDS, and transcript. Is there a way/tool to extract the UTRs regions from this gff file?

[heskett]

You can probably also download a specific table of all the of UTRs from the UCSC table browser

Answer 1

[Juke34]

Extracting genomic feature sequences from GTF/GFF files with AGAT

You should provide the real feature name used in your gff file e.g. 5utr, "5'utr", five_prime_UTR, UTR, etc...