[maker-devel] Moving Annotation to New Assembly

[Shaw, Sophie]

Dear Maker Team,

I have reassembled some data that was previously assembled with different software and then annotated using MAKER. I want to transfer the MAKER annotation to the new fasta file. I've followed the instructions in the post here - https://groups.google.com/forum/#!searchin/maker-devel/est_forward/maker-devel/q9fxXGKO8mk/0ATwhJvZeI4J

However all of the information in the final column of the GFF has not been transferred over, just the gene name. For example:

The original annotation is as follows:
scaffold_252 maker gene 3018 4307 . + . ID=CAUR_05562;Name=CAUR_05562;Alias=augustus_masked-scaffold_252-processed-gene-0.0;Note=Similar to VHS1: Serine/threonine-protein kinase VHS1 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c));Dbxref=Gene3D:G3DSA:1.10.510.10,Gene3D:G3DSA:3.30.200.20,InterPro:IPR000719,InterPro:IPR002290,InterPro:IPR008271,InterPro:IPR011009,InterPro:IPR017441,PANTHER:PTHR24343,PANTHER:PTHR24343:SF90,Pfam:PF00069,ProSitePatterns:PS00107,ProSitePatterns:PS00108,ProSiteProfiles:PS50011,SMART:SM00220,SUPERFAMILY:SSF56112;Ontology_term=GO:0004672,GO:0005524,GO:0006468,GO:0016772;

And the new annotation after running MAKER with est_forward=1:
scaffold_21 maker gene 18116 19405 . - . ID=maker-scaffold_21-exonerate_est2genome-gene-0.25;Name=CAUR_05562-RA-gene

Is there a way of pulling the Note part of the gff file over as well as the gene name (and is this even a correct thing to do -  should I be re-running MAKER entirely?). The researchers don't want to lose the information gained from the work on the previous annotation.

All the Best,

Sophie Shaw

-
Dr. Sophie Shaw
Bioinformatician
Centre for Genome Enabled Biology and Medicine
University of Aberdeen
23 St. Machar Drive
Old Aberdeen
AB24 3RY
https://www.abdn.ac.uk/genomics/




The University of Aberdeen is a charity registered in Scotland, No SC013683.
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