Table 1 List of oligonucleotide probes tested in EMSA
From: Regulatory single nucleotide polymorphisms (rSNPs) at the promoters 1A and 1B of the human APC gene
| SNP identifier in dbSNP NCBI database | Sequences of oligonucleotides 5’- > 3’ | Coordinates (hg19) | Minor Allele Count (MAF) | Promoter |
|---|---|---|---|---|
| Rs75612255: T > C |
Allele T: ATTTATTACTCTCCCTCCCACCTCCGGCATC Allele C: ATTTATTACTCTCCCCCCCACCTCCGGCATC |
Chr5:112737543 (−316), 5'-flank | NA | 1A |
| Rs79734816: T > C |
Allele T: TCTGCCCTGCGGACCTCCCCCGACTCTTTAC Allele C: TCTGCCCTGCGGACCCCCCCCGACTCTTTAC |
Chr5: 112737587 (−272), 5'-flank | NA | 1A |
| Rs77733015: T > G |
Allele T: GGGCTAGGCAGGCTGTGCGGTTGGGCGGGGC Allele G: GGGCTAGGCAGGCTGGGCGGTTGGGCGGGGC |
Chr5: 112737699 (−160), 5'-flank | NA | 1A |
| Rs78597499: T > G |
Allele T: AGGCAGGCTGTGCGGTTGGGCGGGGCCCTGT Allele G: AGGCAGGCTGTGCGGGTGGGCGGGGCCCTGT |
Chr5: 112737704 (−155), 5'-flank | NA | 1A |
| Rs35417795: 112737713delG |
Allele del: GTGCGGTTGGGCGGG-CCCTGTGCCCCACTG Allele G: GTGCGGTTGGGCGGGGCCCTGTGCCCCACTG |
Chr5: 112737713 (−146), 5'-flank | NA | 1A |
| Rs113017087: T > C |
Allele T: GTGTAATCCGCTGGATGCGGACCAGGGCGCT Allele C: GTGTAATCCGCTGGACGCGGACCAGGGCGCT |
Chr5: 112737780 (−79), 5'-flank | C = 0.0032/16 | 1A |
| Rs75996864: T > G |
Allele C: ACCGACATGTGGCTGTATTGGTGCAGCCCGC Allele G: ACCGACATGTGGCTGGATTGGTGCAGCCCGC |
Chr5: 112737860 (1), 5'-UTR | NA | 1A |
| Rs115242894: G > C |
Allele G: GTATTGGTGCAGCCCGCCAGGGTGTCACTGG Allele C: GTATTGGTGCAGCCCCCCAGGGTGTCACTGG |
Chr5: 112737874 (15), 5'-UTR | C = 0.0042/21 | 1A |
| Rs80112297: A > G |
Allele A: GCTTGCTGCGGGGGGAGGGGGGAAGGTGGTT Allele G: GCTTGCTGCGGGGGGGGGGGGGAAGGTGGTT |
Chr5: 112737967 (108), intron | NA | 1A |
| Rs76241113: A > G |
Allele A: GCGGGGGGAGGGGGGAAGGTGGTTTTCCCTC Allele G: GCGGGGGGAGGGGGGGAGGTGGTTTTCCCTC |
Chr5: 112737974 (115), intron | NA | 1A |
| Rs80313086: T > G |
Allele T: GGGGAGGGGGGAAGGTGGTTTTCCCTCGCAC Allele G: GGGGAGGGGGGAAGGGGGTTTTCCCTCGCAC |
Chr5: 112737978 (119), intron | NA | 1A |
| Rs115658307: C > T |
Allele C: CAAGATGGCGGAGGGCAAGTAGCAAGGGGGC Allele T: CAAGATGGCGGAGGGTAAGTAGCAAGGGGGC |
Chr5: 112707537 (33), 5'-UTR | T = 0.0054/27 | 1B |
| Rs138386816: C > T |
Allele C: GCGGGGTGTGGCCGCCGGAAGCCTAGCCGCT Allele T: GCGGGGTGTGGCCGCTGGAAGCCTAGCCGCT |
Chr5: 112707566 (62), 5'-UTR | T = 0.0088/44 | 1B |
| Rs79896135: C > G |
Allele C: AGCCTAGCCGCTGCTCGGGGGGGACCTGCGG Allele G: AGCCTAGCCGCTGCTGGGGGGGGACCTGCGG |
Chr5: 112707585 (81), 5'-UTR | G = 0.1777/890 | 1B |
| Rs78429131: T > G |
Allele T: AGGAAGGTGAAGCACTCAGTTGCCTTCTCGG Allele G: AGGAAGGTGAAGCACGCAGTTGCCTTCTCGG |
Chr5: 112707687 (183), 5'-UTR | G = 0.0767/384 | 1B |
