Hi Federica, Are you referencing chromosome 6 of the hg18 assembly? If so, the gene you are looking at is on the opposite strand; to view the other 3 codon frames on the negative strand, click on the "-->" next to the base track.
In the future, please include the assembly, chromosome and position of your area of concern so that it is easier for us to assist you. I hope this information is helpful. Please feel free to contact the mail list again if you require further assistance. Best, Mary ------------------ Mary Goldman UCSC Bioinformatics Group On 6/21/10 8:42 AM, federica torri wrote: > Hi, > > I am using UCSC genome browser to investigate the possible meaning of a SNP > I found with target resequencing of a region. I chose the "base" > visualization and I noticed some weird thing. The one I am attaching is only > one example. If you look at the grey rows (that I think are the three > possible frames) you see that for example the SNP in the 135795890 position > may be in the second position of an ACT codon (coding for T), a first > position of a CTT codon (coding for L) and in the third position of another > codon coding for N. If you look to the UCSC genes track you see that there > is an S...so, what is the meaning of the grey rows that appeared when you > select the full visualization? WHat is the correct info? The S or all the > other possibilities? When the goal is to understand the possible drawbacks > of a new SNPs is very important to be sure what you are looking at. > > Thanks a lot > > > > Federica > > > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
