Hi Xue, In order to obtain nucleotide position information, you will need to use pslMap and the refSeqAli table. Please see this previously answered question for more detailed instructions: https://lists.soe.ucsc.edu/pipermail/genome/2011-October/027320.html
I hope this helps. If you have any further questions, please email us again at [email protected]. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 10/30/2011 10:37 AM, xue lin wrote: > Dear ucsc, > I have downloaded the table of refseq genes and the hg19 mRNA fasta file, > which means I have the refseq# of the mRNA and also the refseq gene data. > The question is: how can I found out the postion of a certain nucleotide of > the mRNA in the refseq gene table. I have seen the txStart and txEnd columns > in the table. Considering the splicing of mRNA, how can I get each > nucleotide position information in the genome. > Thank you very much. > All the best. > Xue Lin > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
