How is 'intergenic' sequence found?

[ginreaper]

I am interested in obtaining co-ordinates of regions devoid of annotated transcripts. I could do this from the full list of transcripts but it seems it has already been done for the FASTA files entitled 'intergenic'.
http://flybase.org/static_pages/docs/datafiles.html

Can someone confirm these intergenic regions are what they say they are and perhaps explain how they were deduced?

Thanks.

[Josh Goodman]

Yes they are what they say they are. See http://www.sequenceontology.org/miso/cu ... SO:0000605 for the definition and essentially the method we use to calculate these regions.

Cheers,
Josh