Dear Mary, I do not remember whether we already thanked you for your e-mail. If not, please accept our apologies and thanks again for your pointing us to the simplest possible solution that we have completely missed - and we thought we were not paying attention - to say the least - but we better felt totally dumb.
thanks again and sorry for having bothered you with a silly question best regards Fabio Macciardi Fabio Macciardi MD PhD Professor of Molecular Psychiatry Dept of Psychiatry and Human Behavior School of Medicine University of California, Irvine Irvine, CA 92697-1700, USA email [email protected] phone 949 824 4559 On Jun 21, 2010, at 3:56 PM, Mary Goldman wrote: > 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
