Hi Rupert You are right it looks like PRIMARY is a new keyword in RefSeq. I have added this to the code and the changes have been committed. I have also updated the development version that can be found on the Artemis home page.
Regards Tim On 6/8/07 22:17, "Rupert Millard" <[EMAIL PROTECTED]> wrote: > Hi, > > I am a great fan of Artemis, having used it since I started working in a > lab in May. I think I may have discovered a bug though (in version 9) - > > Artemis is not properly loading some mRNA transcripts in GenBank format > from Entrez Gene such as the one at > http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=NM_001353.5 > > The "opened" sequence begins 'nrnmarynnnnnrnnsnnnsnannnnnnnnnnnrnmaryn'. > > After removing the following section from the GenBank entry, the file > opens properly: > >> PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP >> 1-623 BC040210.1 660-1282 >> 624-628 CB119749.1 440-444 >> 629-1179 BC040210.1 1288-1838 >> 1180-1384 M86609.1 1003-1207 > > There is something about this first line which makes Artemis to try to > treat it as bases - I noticed the following correspondence between the > section I removed and the gobbledegook: > > PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN > : :::: : : : :: : :::: : :: : : :::: : :: > nrnmarynnnnnrnnsnnnsnannnnnnnnnnnrnmarynndnntnnnnrnnrnmarynsnan > > I hope someone can fix this. I looked at the source code, but don't know > where to begin! > > Best wishes, > > Rupert Millard > > _______________________________________________ > Artemis-users mailing list > [email protected] > http://lists.sanger.ac.uk/mailman/listinfo/artemis-users _______________________________________________ Artemis-users mailing list [email protected] http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
