What Does that the plus or minus sign before a nucleotide position in SNP mean?

Question

[Marmar]

Like TLR +3725 G/C gene SNP , What does this + sign mean?

I understand that 3725 means the base pair position of the nucleotide but i can't figure out the meaning of the + sign?

Thanks

[Ram]

Where do you see this? Can you like to a site or a tool in whose output you see this?

[GenoMax]

Here and also here. Reference is to this SNP.

Answer 1

[Ram]

Yeah, they need to refer to the SNV in a clearer manner (as in, stick to HGVS conventions). The accurate convention is mentioned in the dbSNP page: NM_003266.3:c.*1206G>C. This refers to a variant 1206 bases to the 3' location of the stop codon (*) on transcript NM_003266.3. Previously accepted/widely-used nomenclature for this variant would include c.*+1206G>C and 3'+1206G>C

It is common (in old-school clinical settings at least) to refer to a variant in the 3' location of a transcript as 3'+<coordinate><variation> (as in 3'+3725G>C, which means that the location is 3725 bases to the 3' of the last base of the stop codon.

[Ram]

I mean, the papers are from 2007 and 2012, and these conventions might be more applicable to the 2012 paper than to the previous one, but still - they refer to variants in the most random way possible. It's a pet peeve of mine when people don't stick to HGVS notations in publications. You're scientists, put some effort!