The dbSNP BLAST page has been updated. The page is now available with a new user interface. It is consistent with other NCBI BLAST Web Pages and more intuitive with easier access to many different organisms. The new page is available from the BLAST home page and directly at:
The SNP blast databases are built from RefSNP(rs) flanking sequences as their sequence source. The RefSNP set includes not only polymorphisms but also rare clinical variants from human. In addition to single nucleotide variants, SNP blast databases also include flanks from insertions/deletions, short tandem repeats and multi-base nucleotide variations. Typical use cases for dbSNP BLAST page includes:
1.) Confirming that a novel SNP has not been reported in dbSNP using your flanking sequences.
2.) Determining if a sequence you have overlaps flanks from or includes variations stored in dbSNP.