Hello, This name correspondence was obtained from Sanger in 2008, and it looks like there isn't any name correspondence for this transcript in those files. It's possible the associated WormBase ID was not known at that time. In this particular case, we use a default WormBase ID of the gene name shown in sangerGene.name for our display on the details page of this gene.
Please contact us again at [email protected] if you have any further questions. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 5/24/2012 1:53 AM, [email protected] wrote: > Hey, > > I need to assign transcripts to their respective genes. > For ucsc transcripts I am retrieving the gene name from kgXref.geneSymbol, > for Ensemble from ensemblToGeneName.value and > > for RefSeq from refFlat.geneName. > (In the latter case I am not entirely sure that I am using the right table > because kgXref also has a field refseq (?) which however doesn't have a > geneSymbol for every RefSeq transcript) > > > > For c. elegans (ce6) sangerGene transcripts I have a problem. > I am getting a geneid from sangerGeneToWBGeneID.WBGeneID. However there > doesn't seem to be a WBGeneID for every transcript. > (Y95B8A.12d for example, wormbase itself has an ID there) > Are those just missing in the system or am I linking to the wrong table to > get genes for the wormbase transcripts? > > Thanks a lot for help :-) > > Greetz > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
