Hi, I have a question similar to the thread: https://lists.soe.ucsc.edu/pipermail/genome/2007-March/012964.html
Example. The UniProt ID Q02297 is a protein generated from the human gene NRG1. Q02297 has 40 entries in the table http://hgdownload.cse.ucsc.edu/goldenPath/uniProt/database/feature.txt.gz corresponding to different protein features. One entry is: Q02297 33 34 33 165144 0 0 which indicates a breakpoint for translocation to form gamma-heregulin in codon 34. The "33" in col 4 means "SITE" (from featureClass.txt) and the "165144" in col 4 is "Breakpoint for ..." (from featureType.txt). I need to compute the genomic coordinates on chr8 for codon 34. Is there a simple lookup for this? Or do I have to wade through refGene exon boundaries and exonFrames for this? (I have to do this a lot so need an algorithm for a program). Can you help? Best, Pat Sullivan ---- UNC/Genetics & Carolina Center for Genome Sciences ---- CB#7264, 120 Mason Farm Road, 5097 Genetic Medicine Building ---- Chapel Hill, NC, 27599-7264, USA _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
