From: Patterns of linkage disequilibrium and haplotype distribution in disease candidate genes
SNP | Gene | dbSNP accession | polymor phisma | Domain | Distanceb | Frequency (%)c | Forward Primer | Reverse Primer |
---|---|---|---|---|---|---|---|---|
1 | APOE | ss12568587 | G-C | 5' UTR | 35.7 | TCCCCAGGAGCCGGTGA | CCCCAAGCCCGACCCC | |
2 | APOE | ss12568609 | G-A | Intron 2 | 1,277 | 39.9 | CCTCAGGTGATCTGCCCGTTTC | ACTCCTGGGCTCAAGTGATCCTC |
3 | APOE | ss12568607 | T-C | Exon 4 | 1,497 | 14.9 | CGGGCACGGCTGTCCAA | CGAGCATGGCCTGCACCTC |
4 | APOE | ss12568612 | C-T | Exon 4 | 138 | 8.7 | GCTGCGTAAGCGGCTCC | GCGGCCCTGTTCCACC |
5 | COL1A1 | ss12568606 | G-T | 5' UTR | 15.4 | GCACCCTGCCCTAGACCAC | CCTAGTGCCAGCGACTGCA | |
6 | COL1A1 | ss12568597 | G-T | Intron 1 | 3,543 | 18.8 | CCAATCAGCCGCTCCCATTC | CATCGGGAGGGCAGGCTC |
7 | COL1A1 | ss12568598 | G-T | Exon 8 | 2,365 | 0.0 | GGAAGACTGGGATGAGGGCA | GGCTCGCCAGGCTCACC |
8 | COL1A1 | ss12568584 | G-A | Exon 45 | 9,862 | 1.9 | CTCAGCCTTCCCTGGCCAA | AGGCGGAAGTTCCATTGGCATC |
9 | ER-α | ss12568579 | A-G | Exon 1 | 48.4 | TTGAGCTGCGGACGGTTCA | CGCCGGTTTCTGAGCCTTC | |
10 | ER-α | ss12568596 | T-C | Intron 1 | 34,258 | 44.9 | TGGGATTCCAGGCATGAACCAC | TGGCGTCGATTATCTGAATTTGGCC |
11 | ER-α | ss12568619 | G-A | Intron 3 | 66,110 | 25.7 | CCCAGAAACAAGTCATCTGCTATTGACA | GTAACAAAAGGTTAACAATGGTTAGCCC |
12 | ER-α | ss12568618 | G-C | Exon 4 | 36,077 | 21.8 | ACAGCCTGGCCTTGTCCC | CAGGTTGGTCAGTAAGCCCATCA |
13 | ER-α | ss12568585 | G-A | Intron 4 | 39,074 | 9.8 | GATCAATGAAGTGGGTCTTGAAAAACCAA | GGTGACAAGCTGGAAATCTAAGCTTCA |
14 | ER-α | ss12568605 | G-A | Intron 6 | 83,068 | 11.9 | GGAACGGCCCTTGGAAATTGTAAA | CTGCCTACAGAATACAGTCAGCCA |
15 | ER-α | ss12568617 | G-A | Exon 8 | 32,431 | 20.3 | TCGCATTCCTTGCAAAAGTATTACATCAC | CAAGCAAATGAATGGCCACTCATCTAGAAA |
16 | LEPR | ss12568615 | A-G | Exon 4 | 29.0 | AGATTTAAGTTGTCTTGCATGCCACC | TTAAGCCCAGCATCCATTAGCTATTCTTTC | |
17 | LEPR | ss12568604 | G-C | Exon 14 | 3,013 | 18.2 | GAGTAATTGGAGCAATCCAGCCTACA | GCTTCAGCCACTGTACATCTTAGCTC |
18 | LEPR | ss12568614 | G-A | Exon 20 | 62,803 | 35.3 | GCCACGCTGATCAGCAACTC | CCCTTGACTTGTCAGTCAAAAGCAC |
19 | PTHR1 | ss12568589 | G-A | Intron 1 | 0.1 | GACTTACATTAGGATTCAAGGTTACTGCCA | GGGACGCAAGCCTGAGTCC | |
20 | PTHR1 | ss12568592 | A-G | Intron 2 | 4,250 | 39.8 | GCAGAACCCTAAGGGCTTGTCA | GGCGGGACCCAGGATACA |
21 | PTHR1 | ss12568591 | C-T | Intron 8 | 5,436 | 37.4 | CGAGCCTCAATTCAGGTGAATCTAACC | CCCGCCCCAAGTGGAACA |
22 | PTHR1 | ss12568588 | G-A | Intron 10 | 1,912 | 39.7 | CCTTGAGCCCTTGGTTTTCCTTTC | GCTCCGGGAACAAAAAGTGGATCA |
23 | PTHR1 | ss12568590 | G-A | Exon 13 | 1,246 | 38.0 | CTACAAGGCTCAAATTGCCCCAAA | TTGGCGTCCACTACATTGTCTTCA |
24 | TGF-β1 | ss12568613 | C-T | 5' UTR | 31.1 | GGGCCCAGTTTCCCTATCTGTAAA | CTGGGCCACCGTCCTCATC | |
25 | TGF-β1 | ss12568603 | +C/-C | Intron 4 | 12,354 | 2.1 | CCACGCCCCACTTATCTATCCC | GGAAAGGCCGGTTCATGCCA |
26 | TGF-β1 | ss12568593 | C-T | Exon 5 | 83 | 0.8 | CAGGCTACAAGGCTCACCTGAA | GGTTCACTACCGGCCGC |
27 | TGF-β1 | ss12568602 | C-T | Intron 5 | 9,644 | 27.4 | GGCTTGTCTTAAGCATTGCGTGAAATTAA | GTACAGCTGCCGCACGC |
28 | UCP3 | ss12568601 | C-T | 5' UTR | 26.5 | CACTGCCCTCACCAGCCA | GTGAGTCCTGCCACGGCA | |
29 | UCP3 | ss12568600 | G-A | Exon 2 | 2,122 | 0.0 | GCCCTAAAGGGACTGGGCA | GAAAGGTAACGAGGTCAGCAAAACA |
30 | UCP3 | ss12568595 | T-C | Exon 3 | 809 | 25.8 | TGATTCCCGTAACATCTGGACTTTCATC | CTGCCTAAATCCCCTTAGCAGAAAAAAAAA |
31 | UCP3 | ss12568580 | T-C | Exon 5 | 1,712 | 44.7 | CCTAACAGGAACTTTGCCCAACATCA | TCCACGGAGTTCTGGGTTCC |
32 | UCP3 | ss12568599 | C-T | Exon 7 | 2,996 | 0.0 | CCTAACAGGAACTTTGCCCAACATCA | TCCACGGAGTTCTGGGTTCC |
33 | VDR | ss12568583 | G-A | 5' UTR | 28.1 | CAGCATGCCTGTCCTCAGC | CCAGTACTGCCAGCTCCCA | |
34 | VDR | ss12568581 | C-T | Exon 2 | 4,818 | 37.3 | TGGCCCTGGCACTGACTC | GGCACGTTCCGGTCAAAGTC |
35 | VDR | ss12568582 | C-T | Exon 4 | 21,590 | 0.0 | GGACAGTCTGCGGCCCA | CCCTACTCCCTGGGCCC |
36 | VDR | ss12568610 | G-A | Intron 8 | 11,470 | 41.9 | GTGCCCCTCACTGCCCTTA | CCTCAAATAACAGGAATGTTGAGCCCA |
37 | VDR | ss12568608 | T-C | Exon 9 | 1,078 | 40.8 | GGGCCAGGCAGTGGTATCAC | AGGTCGGCTAGCTTCTGGATCA |