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Edit annotation database (Read 5844 times)

Jul 9^th, 2015 at 1:43pm

Caluna1201 Offline
YaBB Newbies

Posts: 2

Hi,
I am wondering, if it is possible to edit teh annotation database, which is used for automatic annotation: I want to add our primer database, to check them all on the different constructs.
I already modified the primer_library.ugenedb sqlite file, but the primers are not used for autoannotation. Which file has to be edited to add custom features?

Thank you in advance!
André

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Reply #1 - Jul 9^th, 2015 at 2:13pm

German Offline
Full Member

Posts: 118

Do you mean the "Plasmid features" auto-annotations? If yes then you need to change the file "<UGENE_installation_directory>/data/custom_annotations/plasmid_features.txt".

There are 3 columns in the file: annotation name, type, sequence.
A type can be: Feature, Promoter, Primer, Gene, Origin, Regulatory, Terminator. You need to use the "Primer" type.
Note, that the columns in the file are separated by two symbols: space and tab.

After you change the file, restart UGENE and run the "Plasmid features" auto-annotations for your sequences.

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Reply #2 - Jul 9^th, 2015 at 2:39pm

German Offline
Full Member

Posts: 118

By the way, if you reinstall UGENE this file will be rewritten, so you will lost your changes.

Currently, we don't support such modifications by users (you are the first user who knows about it), so that's why UGENE doesn't support keeping of these changes between UGENE installations.

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Reply #3 - Jul 9^th, 2015 at 4:35pm

Caluna1201 Offline
YaBB Newbies

Posts: 2

Hi, great: this worked out very good!!

Thank you for the quick help!

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