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Why is rs67341913 reported as –/T in the cluster report allele section but annotated as –/A in the RefSeq?

April 26, 2017Allele annotated cluster refseq report reported section t

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Why is rs67341913 reported as –/T in the cluster report allele section but annotated as –/A in the RefSeq?

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This refSNP maps to the reference assembly on the forward strand, but the mRNA is on the reverse strand of the assembly, so the SNP allele is flipped (reverse complement) to ‘-/A’ for reporting on mRNA.You can see this in the GeneView section of this rs number.