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Names in gff files should be species specific
When we export the genome coordinates for a species we do not add species specific ids to the gff files instead we use the more generic ids. For example look at ftp://ftp.ebi.ac.uk/pub/databases/RNAcentral/releases/6.0/genome_coordinates/Schizosaccharomyces_pombe.ASM294v2.gff3.gz
I RNAcentral transcript 1611335 1611958 . - . ID "CU329670.1:1611335..1611958:misc_RNA";Name "URS0000480FAA";type "misc_RNA"
The Name
entry should be URS0000480FAA_4896
.