[ensembl-dev] Ensembl release 65 is out !

[Hiram Clawson]

Good Afternoon Ensembl Fans:

I'm having some difficulty processing the GTF file:

     Drosophila_melanogaster.BDGP5.25.65.gtf.gz

It appears to have gene elements defined in illegal locations.

For example: gene_id "FBgn0002781"; transcript_id "FBtr0084077";

Note the strand indication for exon_number "2" is + and the other exons are -

3R protein_coding exon 17202324 17202463 . - .  gene_id "FBgn0002781"; transcript_id "FBtr0084077"; exon_number "1"; gene_name 
"mod(mdg4)"; transcript_name "mod(mdg4)-RR"; seqedit "false";
3R protein_coding exon 17177331 17177608 . + .  gene_id "FBgn0002781"; transcript_id "FBtr0084077"; exon_number "2"; gene_name 
"mod(mdg4)"; transcript_name "mod(mdg4)-RR"; seqedit "false";
3R protein_coding exon 17203010 17203121 . - .  gene_id "FBgn0002781"; transcript_id "FBtr0084077"; exon_number "3"; gene_name 
"mod(mdg4)"; transcript_name "mod(mdg4)-RR"; seqedit "false";
3R protein_coding exon 17202541 17202798 . - .  gene_id "FBgn0002781"; transcript_id "FBtr0084077"; exon_number "4"; gene_name 
"mod(mdg4)"; transcript_name "mod(mdg4)-RR"; seqedit "false";
3R protein_coding start_codon 17202752 17202754 . - 0  gene_id "FBgn0002781"; transcript_id "FBtr0084077"; exon_number "4"; 
gene_name "mod(mdg4)"; transcript_name "mod(mdg4)-RR";
3R protein_coding exon 17200782 17201634 . - .  gene_id "FBgn0002781"; transcript_id "FBtr0084077"; exon_number "5"; gene_name 
"mod(mdg4)"; transcript_name "mod(mdg4)-RR"; seqedit "false";

Is there something I'm missing here ?

--Hiram