Table 1.
Exon | Number of scanned bp upstream from the exon (without primer) | Forward primer (5’ → 3’) | Reverse primer (5’ → 3’) | Number of scanned bp downstream from the exon (without primer) | Size (bp) including primers | |
---|---|---|---|---|---|---|
Scanning | 1 | 104* | CAGCGCTAGCGCCAGCAG | CCCGGTGCTTTCCCTCCC | 49 | 234 |
2 | 31 | GTCCTCTGGGGTGTGTCCT | TCTGAATGTAGCCTCGGTCA | 201 | ||
GCTTTCAGAACACGGTCCTC | TTATCACCAACCACCACTCC | 52 | 203 | |||
3 | 20 | GGGCGGTCTGTTGTAGGATA | CCACTGAGCCCAGCAGAT | 31 | 215 | |
4 | 129 | AAGCTGAGGCAGGAGAATCA | AAGGTAGCAAGCAGCTGAGG | 163 | ||
AGCCTGGGTGACAAGAGTGA | TGGATCTCAGGATGGCTAGG | 189 | ||||
ATGCTCACTTTCTGGCTGGT | GGCAACGCATGACTTCTACA | 72 | 170 | |||
5 | 27 | CAGCCCCAGAATGTGATCTT | CACACACACGCACACACACT | 19 | 212 | |
6 | 20 | TTTCCCTCTTCCTCCCAAAC | AGCTGAGCATGTTCATTCGTT | 59 | 182 | |
7 | 33 | CCCTCCTCCTGTCATTGACTC | GAGTGGAAAGGAGGTGACCA | 240 | ||
GGAACAAGTCGTGCCTGTTT | ATCTTGCCCAGAACCACAAA | 104 | 184 | |||
8 | 74 | TTCCCTGAAGGGTGACATTC | AGGGGTTCCACTCCTTCTGT | 219 | ||
GGAGGCTTTGATCGTCAAGT | AAAGCCAAGGAGGGAAAATG | 29 | 199 | |||
9 | 14 | AGTCATTCCAGGCCCTCTCT | TGACGAAGCAGATGTGGAAG | 165 | ||
TACACCGTGCTGCTGTTTGT | CAGGAGGGGATGTGGAAGT | 33 | 175 | |||
10 | 27 | TCTTCAGCTGCCACACTCAC | GCCACAGGAGGTAGAGAGCA | 207 | ||
TCTGTGGACGCTCAGAGGTT | CTGCCCACACGTAGAAGTCC | 38 | 157 | |||
11 | 21 | TCTTCTGTCTGGTGAGTGATGAA | TGGACTAAAATCCTCATGGAGAG | 49 | 209 | |
12 | 41 | GTTGAGTGATGGGCTGATCC | GGCAGACTTCTTCAGCACCT | 217 | ||
GCATTCAAGGACAAGGTGCT | CCTGGGCAACATAGTGACCT | 75 | 206 | |||
13 | 62 | GTCTCCAGGGCCTGTCACT | ACCGGAGGATGTTGAACAAG | 184 | ||
CCAGACAGCCTTCGTGTCTT | GCTTTCGTGGCCTAGAACC | 42 | 149 | |||
14 | 49 | TTAACCTTGGTTGGTTTTGC | CAAGTAGGGAGGACCCAGTG | 51 | 228 | |
15 | 41 | GTTCTGTGCATGTGGAGTCG | GGCTCTCTCCACACCATCAC | 22 | 179 | |
16 | 73 | TTCTCTACTTGGGGTAAATTGAGG | CTGAGAGCAGGGACGACTTT | 177 | ||
ATCCCCGAAGGTGCTTTG | GCTTTTCCTCAGACCACCAG | 37 | 171 | |||
17 | 12 | CTGTCTCACCTCGTTCTCCA | CTGACCTTCTCGCCAATCTC | 214 | ||
CTCCCAGACCTGGAAATCCT | CAGCCCACTGAGATTGTGAG | 60 | 134 | |||
18 | 20 | ATTTCCCAGGAAACCCACTC | GGCCAATCACATTTTCAAAGA | 185 | ||
CTTCGATGATCCCCTCTCAG | CCTAAAGGGGACACGTTCTG | 55 | 166 | |||
19 | 26 | CTCACACATGTGCACTCACG | TCTGTGCTGGCATAGGTACG | 204 | ||
GCCAAGCTAGGCAGTCTCAC | GGCAAGTAGCTCATGCTGTG | 99 | ||||
TCTGAGATGGGCTCCTACCA | CAACCTCAAAGAGGCCAATG | 56 | 182 | |||
20 | 48 | TTGTTGCCCTTGGTTTTAGC | CTCCTCTTGTCCTCCCACTG | 44 | 223 | |
21 | 20 | GCATCTGTACGGTTGACACC | TGGGCGCTCTATAAACTCCA | 32 | 228 | |
22 | 25 | GGTGCGTGCATGTGCTAAG | ATGGGGTCATCAGTCCAGAG | 184 | ||
GGCTTCCAACTATTGGCTCA | CAAAACGCTGAGGACTCTAAGG | 72 | 204 | |||
23 | 21 | CCCTCTCTGCATTGTGGAGT | GTCCACTGTGTCCAGCTCCT | 214 | ||
ATGAGCTTCTTTGAGCGGAC | GGCTTGTCCCGAACACTAAG | 14 | 244 | |||
24 | 22 | GAGGGAACCTTCATCAACTCC | TCTGGTTCTCGTCCACCTTC | 212 | ||
CCCATTTCAACGAGACCTTG | GGAAAAGATCGAGGCAAAGA | 55 | 208 | |||
25 | 26 | AGAGCTGACTCCATGCCTGT | GGCTCCCCCATTAACAGACT | 32 | 225 | |
26 | 24 | CGCCCGCTTACTCTAGAAAT | CCAAAGACCAAGAGGTCCAG | 18 | 184 | |
27 | 45 | GGGGAGTCACAGCTTTACCA | GGGAATGGGTGAGGGAAT | 18 | 248 | |
28 | 6 | ACACCTGGGCCCTTCTGTC | TGATCTCTCCTTCGGCAGAC | 113 | ||
CTGGGCTTATTTCGGATCAA | CAGTGCAATCATAGGGCTTG | 40 | 174 | |||
29 | 55 | AGTCCTTAGGTCGCCTCCAT | CCTTCTGCACATTCATGGTC | 227 | ||
CCCACCTGAAGGACTTCGT | CAAACACCCCTACCGAGATG | 47 | 143 | |||
30 | 74 | GTGTCTCCTTTCGCTTCTCC | ATGGTGGACTGGATGAGGTC | 217 | ||
CCTGCTGAGGAAGACGAAGA | AGGCAAACTCCCAAAGCCTA | 25 | 204 | |||
31 | 15 | CCCTTCCCCTCATGTCTGTA | ATAGGCCCTGCAGTTCTGAC | 21** | 185 | |
Sequencing | 1 | - | - | - | ||
2 | TCTCGAACTCCCAGCCTAAA | TAAGCGGCAGAGCAAAGATT | 749 | |||
3 | GAGCATGGTGACCAGACAAA | CTCCTGACCTCAGGTGATCC | 638 | |||
4 | GTGGTGAAACCCCGTCTTTA | CCTTGGAGCAACACAGACAA | 604 | |||
5 | CCCGAGTAGCTGGGATTACA | ACCATGCCAAGTGAGAAACC | 606 | |||
6 | GGGTTGTTGTGGGGATAGAA | AAGCAAAAGCAGTCCAGCAT | 622 | |||
7 | CTGCATGACCCAACAGAATG | CAAACTCCCGACCAAGTGAT | 651 | |||
8 | CTTTGACTCTGCCTTCCCTG | TAGGGGAGCCTAGTGGGTTT | 691 | |||
9 | AGCAATTAGTGCACAACCCC | AAGACATCTACACGCCCACC | 613 | |||
10 | ACAGCCTGGAAGCGTAGAAA | AACTGCCAGGGAGCTCTACA | 664 | |||
11 | GAGCGTGGACCTGCTTATTC | CACCGGCCTACAAGGTCTAA | 608 | |||
12 | GATGTTGAGTGATGGGCTGA | CCTGGGCAACATAGTGACCT | 363 | |||
13 | ATACTGCCCCAGGTTTTTCC | AAAAAGGATAGGAATGGCGG | 611 | |||
14 | CTGGGGAAACCCTTGAAAGT | CCAAGGGAAAGAAATGCAAG | 263 | |||
15 | CCCAAGATGATCGTCCAGAT | TACGCAAGCCAAGAATCTCC | 632 | |||
16 | TCTCCTTTCAGACCTTGCGT | CCTGCCTTCTAGGACAGCAC | 676 | |||
17 | ACTCTTTGGAAGCAGGGGTT | AGTGAGACCTGAGCCACACC | 693 | |||
18 | CTCAAGCCATCTTCCCACTC | GAAGCCAGCCCTGTGACTTA | 717 | |||
19 | CATGTCCCACCTTCAGACCT | CCAGCTTAACTCCGTGCTTC | 748 | |||
20 | CTGCACAGTTGCAAAGCACT | GCCAAGAGACCTGAGCAAAG | 620 | |||
21 | CCGTCTCTTATGCCATGGTT | GGTTCAAATCCCAGTTCTGC | 461 | |||
22 | GCATGTGCTAAGCTGCCTTAT | TGTAAAATGGGCACACTGGA | 485 | |||
23 | CTCAAGTGATCCACCCACCT | TGCTTCAAAAGCACCACACT | 617 | |||
24 | GAGGTTAGCACTTTGCAGCC | ATGATTCATCTGTCCTCCGC | 791 | |||
25 | AAGGCAAGCTTCAGATTCCA | AAAGCATTCCCCTCGTACCT | 674 | |||
26 | AAATGCCACGTGACTCTTCC | CCTGGTGAGGTATCCAGCTC | 242 | |||
27 | AGGGGACAGAGGGACACAG | AAATCTGTGGGGCTCATTTG | 618 | |||
28 | TCATGATGGGAAACTCACCA | GAACGATGAAGTAGGGCCAA | 669 | |||
29 | AGACAGGGTGTTGCCATGTT | TCAACTGAATGGAGCTGGTG | 689 | |||
30 | GGTGTGAGCTGCTGTTTTGA | AAGAGAGGATCCACCCACTG | 556 | |||
31 | CCATGATTGATGTGGGGTAG | AAGCACCAGGAAACCACTTG | 640 | |||
Genotyping | SNP | Forward primer (5’ → 3’) | Reverse primer (5’ → 3’) | Size (bp) including primers | ||
c.128G > C | TCAGAACACGGTCCTCG | ACAGGCCCAGAGGTAAAA | 49 | |||
c.616-7942A > G | AGCAACAGGGCAAACAAATC | GACGGAGCCTAAATGTCCAG | 76 | |||
c.816G > A | CTTGTGTTCCAGGCAGC | GCAGGATCCTTGGAGGAGTA | 51 | |||
c.825 T > C | ||||||
c.1057G > A | GCTCCTTTGCAGGTTGCTCATC | GGGGCCTTCGTGTCATTCA | 48 | |||
c.1062 T > C | GGTTGCTCATCAAGTTCGTGA | GTCTGGGGCCTTCGTGTC | 41 | |||
c.1218 + 8A > G | CATGAGGATCAAGACCGCTG | GTGGAAGTCGGGCCACAT | 84 | |||
c.1299G > T | CCAGAAAATCCTCCACGGT | GTACGTGGCCAAGTCCATGA | 80 | |||
c.1684 T > C | GTTCTGCTTGCAGGAGGCC | TTCAGGGGAAACCGGAGGAT | 125 | |||
c.1704C > T | ||||||
c.2012G > T | TCACCTTCTCCATCCCCG | CACTTTGTCCATCTCAGCCA | 104 | |||
c.2168G > A | CAGGCCTGGATTCAGAATGA | ATGGTTCCTCCAGCTGACAT | 67 | |||
c.2581G > A | CAGGAGCTGCTGGCTCG | TCTGTGCTGGCATAGGTACG | 62 | |||
c.2965G > A | TCCTTTTCATGTGTAACCATGTG | CAATAGTTGGAAGCCAGCG | 46 | |||
c.3140G > C | CTACTCCATGGCCGTGTCC | AGGATGCTGTGCAGCAGGT | 75 | |||
c.3436G > A | GAGGTTCTACGTGGCTTCC | GAATAGACCGGGGAGCG | 69 | |||
c.4002G > A | GACAAGTCCGGATGCCAG | CGAAATAAGCCCAGGGTC | 112 | |||
c.4009A > G | AGCTGGGAAGTCGTCCCT | TGATCTCTCCTTCGGCAG | 65 |
104* - upstream from the START codon. 21** - downstream from the STOP codon. Bold variants means these ones which genetic variation was detected during genotyping method