[maker-devel] Is gene retrieval from gff possible?

[Elyssa Garza]

  Hello
I recently annotated my plant genome and am looking at retrieving a particular set of genes from the maker results. I have a list of TAIR Ids that I am particularly interested in and was thinking about using the gff file to help pull out the associated transcripts. I was wondering if you could advise me on the best or easiest way of obtaining the associated TAIR accession or gene model from the gff file.
I did try looking at the genes (41,779 genes) using CLCbio but the accessions were not easily identified or found. I also looked at the protein matches (819,805 protein matches) and was able to easily find gene model matches corresponding to my target accessions. Is it wise to do this? Can you explain why I can't find these same protein matches in the gene file? I have some ideas on why this is happening but I am looking for support for them.
Elyssa
  
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