[Bioperl-l] Question about embl format

[Lincoln Stein]

Hello,

The "sequence dumper" plugin for the Generic Genome Browser has been crashing 
when making an EMBL dump of a particular region of the worm genome.  The 
issue is a "Transposon_insertion" feature, which exceeds the 15 character 
limit for EMBL feature tags.  If I remove the Bio::SeqIO::embl check for this 
limit, I get an output that looks like this:

...
FT   Transposon_insertion complement(13204595..13204596)
FT                   /score=""
FT                   /group="cxP4108"
FT                   /id=7726466
FT                   /method="Transposon_insertion"
FT                   /source="Allele"
FT                   /phase=""
FT   repeat          13204572..13204602
FT                   /score=80
FT                   /group=""
FT                   /notes="loop 283"
FT                   /id=7775180
FT                   /method="repeat"
FT                   /source="inverted"
FT                   /phase=""
FT                   /note="score=80"
...

My question is whether this is acceptable embl format?  If not, I will have to 
truncate feature type names at 15 characters, but this is going to lose 
information.

Lincoln

-- 
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Lincoln D. Stein                           Cold Spring Harbor Laboratory
lstein at cshl.org			                  Cold Spring Harbor, NY
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