Hello, Perhaps defining the data will aid with your interpretation of the dbSNP data model. I will use the human genomic in my example.
There are two genomic strands for each chromosome plus (+) and minus (-). Both strands contain transcripts that code for genes. Transcription occurs 5' -> 3' on each genomic strand. The dbSNP is assigned to the (+) strand for convenience. The compliment should be used for interpretation with respect to transcripts assigned to the (-) strand. More information can be found on the dbSNP track description page and the links back to the source. Hopefully this helps, Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Nadia Akawi" <[email protected]> wrote: > From: "Nadia Akawi" <[email protected]> > To: [email protected] > Sent: Wednesday, August 19, 2009 2:14:24 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] dpSNP > > Dear Sir, > > May I ask why you use 3'reading for the dbSNP and at the same time you > call > it the genomic + strand, while in my knowledge the + strand (the > coding > strand) from 5' to 3' direction similar to the mRNA. > > > > Best Regards, > > Nadia Akawi > > Research Assistant > > United Arab Emirates University > > Faculty of Medicine & Health Sciences > > Department of Pathology > > UAE > > Al-Ain > > > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
