I noticed that b127 SNPs are no longer associated with function class codes 1,2,5, and 7. Does dbSNP no longer use these function class codes?
As of build 127, function codes 1, 5 and 7 have been modified into two digit codes that will more precisely indicate the location of a SNP. The two digit codes have function codes 1, 5 or 7 as the first digit, each of these numbers keeping its original meaning, and 3 or 5 as the second digit, indicating whether the SNP is 3’ or 5’ to the region of interest. So the new function codes are as follows: Function code 13: “nearGene-3” Where: 1=locus region 3= SNP is 3’ to and 0.5kb away from gene Function code 15: “nearGene-5” Where: 1=locus region 5= SNP is 5’ to and 2kb away from gene Function code 53: “UTR-3” Where: 5= UTR (untranslated region) 3= SNP located in the 3’ untranslated region Function code 55: “UTR-5” Where: 5= UTR (untranslated region) 5(as the second digit)= SNP located in the 5’ untranslated region Function code 73: “splice-3” Where: 7=splice site 3=3’ acceptor dinucleotide Function code 75: “splice-5” Where: 7=splice site 5=5’ donor dinucleotide Function code 2, however,
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