Extract data from GTF file

Question

[bioinformaticsnewbie]

Hello all,

I am new to bioinformatics and I need help doing the following:

1) Extract all gene, isoform, coding exons, 5'UTR and 3'UTR coordinates in BED format from the following GTF file:

http://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_33/gencode.v33.annotation.gtf.gz

For 5' and 3' UTR regions there should be two versions

1) Gene level

2) Isoform level

For gene level data include all UTRs of all the isoforms and merge any overlapping isoform UTRs.

[swbarnes2]

No one wants to do your homework for you. If you say what you tried already, and exactly why you think it's not working, people might help you.