Entering edit mode
8.0 years ago
aj123
▴
120
Hi,
I have the phytozome Maize gff3 file but when I use gffread to convert to gtf something goes wrong with the created gtf and it doesnt work properly. is there some place i could get v3 genome fasta, gff3 and gtf from? preferably not from Gramene.
Have you managed to overcome the problem you had with the gtf file created from gff3? Did it finally run successfully? I have the same problem with my sorghum gff3 file.
Could you provide a link to the gff3 file ? I can maybe help you.
I tried to provide the link, but I failed. The link requires one to have an existing account with phytozome. In other words if you have an account you will be required to login in order to access the gff file (Sbicolor_454_v3.1.1.gene.gff3) from your side. If your are not registered on Phytozome, unfortunately you can't access the link. Please help!
You can download it and share it by dropbox
Could you provide a link to the gff3 file ? I can maybe help you.
If the file is only available to registered members then it may not be legal to share it directly with third-parties. You could register on phytozome site to access the file. Accounts appear to be free.
Hi Juke-34,
It is very easy and free to register on phytozome - thanks to genomax for providing the link. By registering on phytozome, you will not only access sorghum genome, but also other genomes that may be of interest to you.
I really do need someone to show or instruct me how it is done to correctly covert gff file into gtf format. I will really appreciate it.