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Snp Maps To 2 Chromosomes

What does it mean when a SNP maps to two different chromosomes? I am looking at dbSNP build 130 at the following positions:

Chr  Pos               ID
chr4 136725857    rs12643192
chrY 57576500      rs12643192

snp mapping
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written by Gary B. Lipton • Gary B. Lipton

Hi Gary, Welcome on biostar. By chance, your question has already been answered before.

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written by Pierre Lindenbaum Pierre Lindenbaum

Hi Pierre, I'm afraid I can't find the earlier question after searching for a few mins. Do you have a link? Thanks.

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written by Bio_X2Y Bio_X2Y

Sorry, I am new to Biostar. How, exactly, would I find the answer to this question? None of the search terms that occur to me are any help.

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written by Gary B. Lipton • Gary B. Lipton

Thanks for the link. However, the dbSNP mapping process manual does not address how an rs number can be duplicated on two different chromosomes.

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written by Gary B. Lipton • Gary B. Lipton

Why? See the segmental duplications in the UCSC genome browser: 

mysql  -h  genome-mysql.cse.ucsc.edu -A -u genome -D hg18 -e 'select count(*) from genomicSuperDups where chrom!=otherChrom'"
N=33338
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updated by Ram Ram • written by Pierre Lindenbaum Pierre Lindenbaum

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