Entering edit mode
4.4 years ago
felipead66
▴
110
gff-version 3
Pav_co3988703.1 augustus gene 1 195 0.7 - . ID=Pav_co3988703.1_g010.1.br;Note=PREDICTED: disease resistance protein RPM1-like Pav_co3988703.1 augustus exon 16 195 . - . ID=Pav_co3988703.1_g010.1.br:exon:1;
Parent=Pav_co3988703.1_g010.1.br
Pav_co3988703.1 augustus CDS 16 195 0.7 - 0 ID=Pav_co3988703.1_g010.1.br:CDS:1;Parent=Pav_co3988703.1_g010.1.br
Pav_co3988737.1 maker gene 29 998 . - . ID=Pav_co3988737.1_g010.1.mk;Note=PREDICTED: peroxisomal 2,4-dienoyl-CoA reductase
Pav_co3988737.1 maker exon 29 183 . - . ID=Pav_co3988737.1_g010.1.mk:exon:3;Parent=Pav_co3988737.1_g010.1.mk
Pav_co3988737.1 maker exon 517 739 . - . ID=Pav_co3988737.1_g010.1.mk:exon:2;Parent=Pav_co3988737.1_g010.1.mk
Pav_co3988737.1 maker exon 813 998 . - . ID=Pav_co3988737.1_g010.1.mk:exon:1;Parent=Pav_co3988737.1_g010.1.mk
Pav_co3988737.1 maker CDS 29 183 . - 2 ID=Pav_co3988737.1_g010.1.mk:CDS:3;Parent=Pav_co3988737.1_g010.1.mk
Pav_co3988737.1 maker CDS 517 739 . - 0 ID=Pav_co3988737.1_g010.1.mk:CDS:2;Parent=Pav_co3988737.1_g010.1.mk
I try to use HTSeq to find counts for prunous avium but I get an error :
Error occured when processing GFF file (line 3 of file /home/maria/Documents/PAV_r1.0.genes.gff): Feature Pav_co3988703.1_g010.1.br:exon:1 does not contain a 'gene_id' attribute
[Exception type: ValueError, raised in count.py:79]
I have no idea what the gene_id could be replaced. Any help on that?
