F8 regions resequenced to identify and genotype common polymorphisms
| Amplicon* . | Forward primer . | Reverse primer . | Nucleotides† . |
|---|---|---|---|
| 01 | 5′ -TATCAAAGGGGCTTCTTGC | 5′ -CATGCCCTTTCTCCTGACC | −1214 to −573 |
| 02 | 5′ -AGCAAGTGTTGAGGTCCAGG | 5′ -TGAAGTAGCAAAAGGGAGGC | −683 to −56 |
| 03 | 5′ -CTTCTCCATCCCTCTCCTCC | 5′ -CAGAAATGTTTCTTTGGGGC | −168 to 441 |
| 04 | 5′ -CTTCAAATTTGCCTCCTTGC | 5′ -AGACCAAGCAGAGGAAGACG | 23012 to 23436 |
| 05 | 5′ -AATCTTGCCTCAGAGCAACC | 5′ -GAAAAGCAATTCCTAGGGGG | 25450 to 26066 |
| 06 | 5′ -GGGCAACAGAGTGAGACTCC | 5′ -TTCTGGAACTCAGCTCCTCC | 29413 to 30016 |
| 07 | 5′ -GGAGACCTGACATCAAAGCC | 5′ -AACCCCATCTCCTTCATTCC | 35266 to 35608 |
| 08 | 5′ -TAAGGTGTGAGCACACTGGG | 5′ -CGATGAGTTCTGTTCTGAGCC | 37821 to 38404 |
| 09 | 5′ -ATGGTGATTGGTGACCTTGG | 5′ -GGAAACTAGGGGATCTTGGC | 52986 to 53544 |
| 10 | 5′ -GTCTTGCTCCTGCTTTCACC | 5′ -TACCCTTGCCATTTGATTCC | 55802 to 56428 |
| 11 | 5′ -CTGCTGAAGAGGAGGACTGG | 5′ -ATGTCCATTGGAGACAAGGC | 56244 to 56855 |
| 12 | 5′ -GATTGTGGTATCTGCAGGGG | 5′ -CAACAGCTGGAGAAAGGACC | 61345 to 61753 |
| 13 | 5′ -TGACACTTTCACAGTCAACCG | 5′ -CAGCAGGCACGTTTACTACG | 65333 to 65920 |
| 14 | 5′ -CAGTCACCCTCTTGTCCTGG | 5′ -GGGAATTAAAAGGGAGAGGG | 68456 to 69067 |
| 15 | 5′ -CCTGGGAATAAGATAATGGGC | 5′ -AAATGCTGGTGAGGATGTGG | 74699 to 75338 |
| 16 | 5′ -ACAGCAGCAATGCAAAAACC | 5′ -TCTATTGCTCCAGGTGATGG | 90867 to 91468 |
| 17 | 5′ -ATGCTCTTGCGACAGAGTCC | 5′ -AACAAAGCAGGTCCATGAGC | 91365 to 91942 |
| 18 | 5′ -TTGGCAAAAAGTCATCTCCC | 5′ -CTAATTGCTTTGGACTGGGG | 91756 to 92379 |
| 19 | 5′ -CCACCAGATGCACAAAATCC | 5′ -TTTGCTTGGTTTGATTTCCC | 92247 to 92850 |
| 20 | 5′ -GAAGGTTCATATGAGGGGGC | 5′ -ATGACTGCTTTCTTGGACCC | 92700 to 93290 |
| 21 | 5′ -TCTGACCAGGGTCCTATTCC | 5′ -CATGATTGCTTTCACAAGCG | 93200 to 93816 |
| 22 | 5′ -ATTGGATCCTCTTGCTTGGG | 5′ -TGTCCCTGATTCCTCTACCC | 93674 to 94323 |
| 23 | 5′ -ATGCAAAATGCTTCTCAGGC | 5′ -AAAAGCTTGTTCAAAATAAATGG | 116050 to 116647 |
| 24 | 5′ -TCTGTACCACTTCTTCCAGGG | 5′ -TTTATGCCAGTCCAACCTGC | 117559 to 118125 |
| 25 | 5′ -TATTTTTGGAAGGTGGGAGG | 5′ -CGAATCCTTTGATCCTGAGC | 118087 to 118699 |
| 26 | 5′ -TTGATGAGACCAAAAGCTGG | 5′ -AGAGCATGGAGCTTGTCTGC | 118318 to 118933 |
| 27 | 5′ -AAGCACTTTGCATTTGAGGG | 5′ -TGGAGATCTTCGAGCTTTACC | 120414 to 120947 |
| 28 | 5′ -GGACCCCAGTTTCTTCAGC | 5′ -AGTGGGAAGTGGAGAGGAGG | 121066 to 121510 |
| 29B | 5′ -GAATTTAATCTCTGATTTCTCTAC | 5′ -GAGTGAATGTGATACATTTCCC | 122740 to 122902 |
| 30B | 5′ -TAAAAATAGGTTAAAATAAAGTG | 5′ -TTTAAATGACTAATTACATACCA | 126453 to 126668 |
| 29A | 5′ -TCAGGGTTGGTTACTGGAGC | 5′ -ACACTACCATGGTCTTGGGG | 158245 to 158735 |
| 30A | 5′ -AGTCAGTGGGCCTGTTATGG | 5′ -GTCCCTAGCTCTTGTTCCCC | 158526 to 159105 |
| 31 | 5′ -TGGGCAGATAGGGATAGTGG | 5′ -TTTGTGCGTTTCTCAACAGC | 158833 to 159409 |
| 32 | 5′ -TTCCCACTTCTTCTTGGTGC | 5′ -TGGGCATTTAGGTTGACTCC | 159304 to 159934 |
| 33 | 5′ -TCATGCCACTACACTCCAGC | 5′ -CTGCCCATAACCAAACTTCC | 160633 to 161150 |
| 34 | 5′ -GGGTGACAGAGCAAGACTCC | 5′ -AAAAGGCTTGGGAATCAAGG | 161982 to 162549 |
| 35 | 5′ -AGATGTCCCAGATGCGTAGG | 5′ -GCTTTCATGCAGGTTTCTCC | 184818 to 185411 |
| 36 | 5′ -TATTTTCTGCAGCTGCTCCC | 5′ -CTTTCAACAATTGCATCCTCC | 185329 to 185941 |
| 37 | 5′ -GAGGGGCACATTCTTATCTCC | 5′ -TCATAGTGAAGGGGTCAGGC | 185733 to 186382 |
| 38 | 5′ -CACCACACAATAGGATCCCC | 5′ -GTCAATGGGAAAAGAATGCC | 186289 to 186832 |
| 39 | 5′ -CAATCCACAAATGATGCAGG | 5′ -AGTGCCAGGATTACAGGCAT | 186639 to 187259 |
| Amplicon* . | Forward primer . | Reverse primer . | Nucleotides† . |
|---|---|---|---|
| 01 | 5′ -TATCAAAGGGGCTTCTTGC | 5′ -CATGCCCTTTCTCCTGACC | −1214 to −573 |
| 02 | 5′ -AGCAAGTGTTGAGGTCCAGG | 5′ -TGAAGTAGCAAAAGGGAGGC | −683 to −56 |
| 03 | 5′ -CTTCTCCATCCCTCTCCTCC | 5′ -CAGAAATGTTTCTTTGGGGC | −168 to 441 |
| 04 | 5′ -CTTCAAATTTGCCTCCTTGC | 5′ -AGACCAAGCAGAGGAAGACG | 23012 to 23436 |
| 05 | 5′ -AATCTTGCCTCAGAGCAACC | 5′ -GAAAAGCAATTCCTAGGGGG | 25450 to 26066 |
| 06 | 5′ -GGGCAACAGAGTGAGACTCC | 5′ -TTCTGGAACTCAGCTCCTCC | 29413 to 30016 |
| 07 | 5′ -GGAGACCTGACATCAAAGCC | 5′ -AACCCCATCTCCTTCATTCC | 35266 to 35608 |
| 08 | 5′ -TAAGGTGTGAGCACACTGGG | 5′ -CGATGAGTTCTGTTCTGAGCC | 37821 to 38404 |
| 09 | 5′ -ATGGTGATTGGTGACCTTGG | 5′ -GGAAACTAGGGGATCTTGGC | 52986 to 53544 |
| 10 | 5′ -GTCTTGCTCCTGCTTTCACC | 5′ -TACCCTTGCCATTTGATTCC | 55802 to 56428 |
| 11 | 5′ -CTGCTGAAGAGGAGGACTGG | 5′ -ATGTCCATTGGAGACAAGGC | 56244 to 56855 |
| 12 | 5′ -GATTGTGGTATCTGCAGGGG | 5′ -CAACAGCTGGAGAAAGGACC | 61345 to 61753 |
| 13 | 5′ -TGACACTTTCACAGTCAACCG | 5′ -CAGCAGGCACGTTTACTACG | 65333 to 65920 |
| 14 | 5′ -CAGTCACCCTCTTGTCCTGG | 5′ -GGGAATTAAAAGGGAGAGGG | 68456 to 69067 |
| 15 | 5′ -CCTGGGAATAAGATAATGGGC | 5′ -AAATGCTGGTGAGGATGTGG | 74699 to 75338 |
| 16 | 5′ -ACAGCAGCAATGCAAAAACC | 5′ -TCTATTGCTCCAGGTGATGG | 90867 to 91468 |
| 17 | 5′ -ATGCTCTTGCGACAGAGTCC | 5′ -AACAAAGCAGGTCCATGAGC | 91365 to 91942 |
| 18 | 5′ -TTGGCAAAAAGTCATCTCCC | 5′ -CTAATTGCTTTGGACTGGGG | 91756 to 92379 |
| 19 | 5′ -CCACCAGATGCACAAAATCC | 5′ -TTTGCTTGGTTTGATTTCCC | 92247 to 92850 |
| 20 | 5′ -GAAGGTTCATATGAGGGGGC | 5′ -ATGACTGCTTTCTTGGACCC | 92700 to 93290 |
| 21 | 5′ -TCTGACCAGGGTCCTATTCC | 5′ -CATGATTGCTTTCACAAGCG | 93200 to 93816 |
| 22 | 5′ -ATTGGATCCTCTTGCTTGGG | 5′ -TGTCCCTGATTCCTCTACCC | 93674 to 94323 |
| 23 | 5′ -ATGCAAAATGCTTCTCAGGC | 5′ -AAAAGCTTGTTCAAAATAAATGG | 116050 to 116647 |
| 24 | 5′ -TCTGTACCACTTCTTCCAGGG | 5′ -TTTATGCCAGTCCAACCTGC | 117559 to 118125 |
| 25 | 5′ -TATTTTTGGAAGGTGGGAGG | 5′ -CGAATCCTTTGATCCTGAGC | 118087 to 118699 |
| 26 | 5′ -TTGATGAGACCAAAAGCTGG | 5′ -AGAGCATGGAGCTTGTCTGC | 118318 to 118933 |
| 27 | 5′ -AAGCACTTTGCATTTGAGGG | 5′ -TGGAGATCTTCGAGCTTTACC | 120414 to 120947 |
| 28 | 5′ -GGACCCCAGTTTCTTCAGC | 5′ -AGTGGGAAGTGGAGAGGAGG | 121066 to 121510 |
| 29B | 5′ -GAATTTAATCTCTGATTTCTCTAC | 5′ -GAGTGAATGTGATACATTTCCC | 122740 to 122902 |
| 30B | 5′ -TAAAAATAGGTTAAAATAAAGTG | 5′ -TTTAAATGACTAATTACATACCA | 126453 to 126668 |
| 29A | 5′ -TCAGGGTTGGTTACTGGAGC | 5′ -ACACTACCATGGTCTTGGGG | 158245 to 158735 |
| 30A | 5′ -AGTCAGTGGGCCTGTTATGG | 5′ -GTCCCTAGCTCTTGTTCCCC | 158526 to 159105 |
| 31 | 5′ -TGGGCAGATAGGGATAGTGG | 5′ -TTTGTGCGTTTCTCAACAGC | 158833 to 159409 |
| 32 | 5′ -TTCCCACTTCTTCTTGGTGC | 5′ -TGGGCATTTAGGTTGACTCC | 159304 to 159934 |
| 33 | 5′ -TCATGCCACTACACTCCAGC | 5′ -CTGCCCATAACCAAACTTCC | 160633 to 161150 |
| 34 | 5′ -GGGTGACAGAGCAAGACTCC | 5′ -AAAAGGCTTGGGAATCAAGG | 161982 to 162549 |
| 35 | 5′ -AGATGTCCCAGATGCGTAGG | 5′ -GCTTTCATGCAGGTTTCTCC | 184818 to 185411 |
| 36 | 5′ -TATTTTCTGCAGCTGCTCCC | 5′ -CTTTCAACAATTGCATCCTCC | 185329 to 185941 |
| 37 | 5′ -GAGGGGCACATTCTTATCTCC | 5′ -TCATAGTGAAGGGGTCAGGC | 185733 to 186382 |
| 38 | 5′ -CACCACACAATAGGATCCCC | 5′ -GTCAATGGGAAAAGAATGCC | 186289 to 186832 |
| 39 | 5′ -CAATCCACAAATGATGCAGG | 5′ -AGTGCCAGGATTACAGGCAT | 186639 to 187259 |
To include all known functional F8 regions in the variation scan, 41 distinct amplicons of the structural locus were PCR amplified from genomic-DNA samples and resequenced directly. The 11 amplicons indicated in italics were directly sequenced to genotype the entire GAIT cohort for the 12 F8 variations that were polymorphic in white individuals.
Numbering for nucleotides corresponds to the hg17 reference sequence for F8.