Download .GFF file

[Matheus Castro]

Dear,

Does the database provide the Gene annotation in gff format of the genomes analyzed in the browser?

If so, do the organisms' GFFs have the same annotation pattern?

All the best,

Matheus de C. Leitão

[Daniel Schmelter]

Hello Matheus,

Thanks for using the Genome Browser and for asking about GFF files.

We do have Gene Annotations in GTF format, which is near identical to GFF. These are available in our downloads directory for every organism, as explained in this FAQ:

https://genome.ucsc.edu/FAQ/FAQgenes.html#gtfDownload

Here is an example link for GTF format files for our top four gene tracks.

http://hgdownload.soe.ucsc.edu/goldenPath/hg38/bigZips/genes/

For datasets other than the four top gene sets, we have a GTF output format option in the Table Browser. This method has the limitation of duplicating the name2 column, as explained here:

https://genome.ucsc.edu/FAQ/FAQdownloads.html#download37

I hope this was helpful. If you have any more questions, please reply-all to gen...@soe.ucsc.edu. All messages sent to that address are publicly archived. If your question includes sensitive data, please reply-all to genom...@soe.ucsc.edu.

All the best,

Daniel Schmelter
UCSC Genome Browser

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