Adding Gene Name attribute to CDS feature ??
how i can add Gene name (Name=value in Gene Feature ) att to CDS and exon feature??
chr1 transdecoder gene 11013482 11051446 . - . ID=CSG00000000267;Name=TWiK family of potassium channels protein 7-like isoform X1|1.20E-222|
chr1 transdecoder mRNA 11013482 11051446 . - . ID=CSM00000000267;Parent=CSG00000000267;Name=TWiK family of potassium channels protein 7-like isoform X1|1.20E-222|
chr1 transdecoder exon 11013482 11015247 . - . ID=CSE00000000985;Parent=CSM00000000267
chr1 transdecoder exon 11028188 11028396 . - . ID=CSE00000000986;Parent=CSM00000000267
chr1 transdecoder exon 11029544 11029744 . - . ID=CSE00000000987;Parent=CSM00000000267
chr1 transdecoder exon 11032351 11032509 . - . ID=CSE00000000988;Parent=CSM00000000267
chr1 transdecoder exon 11032781 11032904 . - . ID=CSE00000000989;Parent=CSM00000000267
chr1 transdecoder exon 11034062 11034235 . - . ID=CSE00000000990;Parent=CSM00000000267
chr1 transdecoder exon 11042353 11042709 . - . ID=CSE00000000991;Parent=CSM00000000267
chr1 transdecoder exon 11051353 11051446 . - . ID=CSE00000000992;Parent=CSM00000000267
chr1 transdecoder CDS 11015089 11015247 . - 0 ID=CSC00000000267;Parent=CSM00000000267
chr1 transdecoder CDS 11028188 11028396 . - 2 ID=CSC00000000267;Parent=CSM00000000267
chr1 transdecoder CDS 11029544 11029744 . - 2 ID=CSC00000000267;Parent=CSM00000000267
chr1 transdecoder CDS 11032351 11032509 . - 2 ID=CSC00000000267;Parent=CSM00000000267
chr1 transdecoder CDS 11032781 11032904 . - 0 ID=CSC00000000267;Parent=CSM00000000267
chr1 transdecoder CDS 11034062 11034235 . - 0 ID=CSC00000000267;Parent=CSM00000000267
chr1 transdecoder CDS 11042353 11042505 . - 0 ID=CSC00000000267;Parent=CSM00000000267
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Mostafa Mahmoud •
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Hello Mostafa. What is your species of study?
Chilo supperssalis denovo species
Interesting... the Asiatic rice borer. I will get back to this in the morning (or somebody else may help).
i have skills in annotation of non model organism but some times i stuck in simple stuff because my background is biology not computer science
Are you sure the species is correct? - according to Ensembl, the identifiers should begin with 'csug'
See here: http://ensembl.lepbase.org/Chilo_suppressalis_csuogs1/Info/Index
How did you produce your output file? Can you show all commands?
this my own id i am working on new version
Okay, but, I am not sure that I can help, in that case. If there is no previous information for your own IDs that you have created, then I am not sure what I (or anybody else) can do.
Or, you could try to overlap the co-ordinates of your new genes to those already identified. There are GFF files available through the link that I showed.
i just want cp the available in the gff annotation to cds and exon feature