FlyBaseAug 8, 2023
Transgenic alleles now have a “Transgenic product class” field that uses Sequence Ontology (SO) term(s) to describe the nature of the encoded product, so that it is easier for you to see whether it is useful for your experiments.
This field is located in both General Information and Nature of the Allele sections of the Allele Reports.
These terms fall into 4 broad types:
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wild_type http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0000817 (often together with either cDNA http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0000756 or genomic_DNA http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0000991 to describe the nature of the coding sequence, if known).
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A term describing a structural change relative to wild-type (such as missense_variant http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0001583 or inframe_deletion http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0001822)
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A term describing a functional change relative to wild-type (such as dominant_negative_variant http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0002052 or polypeptide_post_translational_processing_variant http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0001562)
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A term describing a sequence targeting reagent (such as sgRNA http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0001998 or RNAi_reagent http://flybase.org/cgi-bin/cvreport.pl?rel=is_a&id=SO:0000337).
Aug 8, 2023 at 9:32pmWeb
Show threadFlyBaseAug 8, 2023
Click on the SO term in the “Transgenic product class” field of an Allele Report get a list of all transgenes encoding a particular type of gene product.
On the Term Report (located in the #Vocabularies tool http://flybase.org/vocabularies), you can click on the Alleles button to get a hit list of all of all the matching transgenic alleles.
#FlyBaseTootorial #TransgenicProductClass #SequenceOntology