Table 4. Primers of SNP-containing fragments
KLF11 |
||
SNP1, Adjacent sequence (AS)-1659 G>C |
5’-gaacagcaagtgcgaggac |
5’-gtttaagacgaaagaaccgtgata |
SNP2, AS -1552 Ins(ACTTA) |
5’-gaacagcaagtgcgaggac |
5’-gtttaagacgaaagaaccgtgata |
SNP3, AS -1346 A>G |
5’-gtcttcatgcgagcagtttatcac |
5’-ggaaccatgctgtttattttcgtc |
SNP4, AS -1280Ins(CT) |
5’-gtcttcatgcgagcagtttatcac |
5’-ggaaccatgctgtttattttcgtc |
SNP5, AS -1025Ins (G) |
5’-gagacgcgagcaaccgaaata |
5’-agaggggaccacgcttataggaac |
SNP6, AS -990 T>A |
5’-gagacgcgagcaaccgaaata |
5’-agaggggaccacgcttataggaac |
SNP7, Promoter -86 del(GCC) |
5’-cgggcacgaattggctggtggtgg |
5’-cgctcagacgagtagtcccgc |
SNP8, IVS1 +799C>T |
5’-gacatcacagggggtttagtg |
5’-gaatgagctgatctcttccaaaag |
SNP9, E2 +185 A>G, Gln62Arg |
5’-ctcggtgtttgttgctatagact |
5’-cagggaatcttctcacaagttct |
SNP10, IVS2 +987G>C |
5’-agaaagcagatttggagagggata |
5’-acaggtgtccttgtcgatgg |
SNP11, E3 +1185 A>T, Val395Val (rs11687357) |
5’-ggcctggtgcagttcaga |
5’-gaagatgggccttaaggtgg |
SNP12, IVS3 +976 T>C (rs6432052) |
5’-ggatagacaatcgcttcag |
5’-gggagactatagtaagacctacaa |
SNP13, IVS3 +1112 C>T (rs6432053) |
5’-ggatagacaatcgcttcag |
5’-gggagactatagtaagacctacaa |
SNP14, IVS3 +1331 T> C |
5’-tttgatcctagtggtttattgtag |
5’-gcctgttattgaattggaa |
SNP15, IVS3 +1391G>A |
5’-tttgatcctagtggtttattgtag |
5’-gcctgttattgaattggaa |
SNP16, IVS3 +1398 del(A ) |
5’-tttgatcctagtggtttattgtag |
5’-gcctgttattgaattggaa |
SNP17, AS +343 G>T (rs4444493) |
5’-tttacaaccttttctattga |
5’-ttggtgacaggaatgattgc |
SNP18, AS +1357 C>T (rs4669522) |
5’-ccacctggtcattcattgt |
5’-atgtaatcaggaaatggaagtgta |
SNP19, AS +1652 T>C |
5’-ccacctggtcattcattgt |
5’-atgtaatcaggaaatggaagtgta |
KLF11 +1039 G>T, Ala347Ser |
5’-ggcctggtgcagttcaga |
5’-gaagatgggccttaaggtgg |
KLF11 +659 C>T, Thr220Met |
5’-atctcgtggagccatcg |
5’-acagaaatcagaggggtggt |
Non-KLF11 |
||
1) hCV3216734 |
5’-ttggttggttttggttctca |
5’-ccctccgccccgccttcctc |
2) TAF1B-SL1 +16 T>G, Ser6Ala |
5’-ttggttggttttggttctca |
5’-ccctccgccccgccttcctc |
3) hCV1026832 |
5’-tctcttttatttcagtcttg |
5‘-gattctatactctgcttatt |
4) hCV3216650 |
5’-ttactgttttgttcttcaga |
5’-tgacgtacacttaccactcg |
5) hCV3216649 |
5’-atggtctagttggcaaataa |
5‘-aaaatgttacttgtcataaa |
6) LBP32 +1189 C>T, Ile419Val (rs2303920) |
5’-tgttgcttatggaaccttct |
5’-gctatattctcattttgaca |
7) ATCAAG(G/A) chr2, 10 076 994* |
5’-tgttgcttatggaaccttct |
5’-gctatattctcattttgaca |
8) hCV2072927 |
5’-tcgccagcacaggtctatgt |
5‘-cgtagcagatgtcctaaagc |
9) AAGGGG(A/G) chr2, 10 110 956 |
5’-ccctttagagatgctgtgt |
5’-cacattctatccgccaaatg |
10) hCV2072888 |
5’-tcgctgttggtattctggt |
5’-actgacaggtctctgatgg |
11) GCGGGC(G/A) chr2, 10 112 490 |
5’-acctccctcctccccaacct |
5’-tctgcctccagcacttcaac |
12) CAGTCT(T/G) chr2, 10 119 738 |
5‘-agtgagggtctgttgaaatcgt |
5‘-agggctttgtctagtatccagg |
13) TCATTC(G/C) chr2, 10 119 897 |
5‘-agtgagggtctgttgaaatcgt |
5‘-agggctttgtctagtatccagg |
14) ATTCGA(G/A) chr2, 10 119 899 |
5‘-agtgagggtctgttgaaatcgt |
5‘-agggctttgtctagtatccagg |
15) ACAATC(G/A) chr2, 10 119 956 |
5‘-agtgagggtctgttgaaatcgt |
5‘-agggctttgtctagtatccagg |
16) hCV11792435 |
5‘-agtgagggtctgttgaaatcgt |
5‘-agggctttgtctagtatccagg |
17) KLF11 AS+2541 A>G |
5’-ctatgatcataccactgcacccta |
5’-gaaggaggctccgtaatcaga |
18) AAGAGG(C/T) chr2, 10 146 021 |
5’-ctatgatcataccactgcacccta |
5’-gaaggaggctccgtaatcaga |
19) rs6736289 |
5’-ctatgatcataccactgcacccta |
5’-gaaggaggctccgtaatcaga |
20) CCACCT(C/T) chr2, 10 146 214 |
5’-ctatgatcataccactgcacccta |
5’- gaaggaggctccgtaatcaga |
21) AK091299 UTR +2422 A>T, C1 |
5’-tttaagttcacctacagc |
5’-tgccaaatacatctttta |
22) rs15380 |
5’-tttaagttcacctacagc |
5’-tgccaaatacatctttta |
23) rs6717452 |
5’-cacacaggagtcccctctagccagcc |
5’-cagtgggaggtagagctcgtca |
24) rs11688858 |
5’-cacacaggagtcccctctagccagcc |
5’-cagtgggaggtagagctcgtca |
25) AK091299 UTR +3107 G>A, C2 |
5’-cacacaggagtcccctctagccagcc |
5’-cagtgggaggtagagctcgtca |
26) TGGGCC(C/G) chr2, 10 149 136 |
5’-tcaggccctgcaagtcaaca |
5’-cct ttcaaatccactttcagaccg |
27) CTCTGC(G/A) chr2, 10 149 894 |
5’-ttctgcctcagcctcctgagta |
5’-cattgattaaggctgtggtgtgct |
28) hCV396866 |
TaqMan SNP genotyping assays (Applied Biosystems). |
|
29) rs6737737 |
5’-tctcacagacccaggactgcctac |
5’-gagaaatgggcacgggacg |
30) ATAGAC(A/G) chr2, 10 153 883 |
5’-gtattggtgagagaggttac |
5’-cctcatcacagaaggaatcaga |
31) CTTGGG(C/T) chr2, 10155128 |
5’-tggtgagtggtagtaacggatatg |
5’-gccttgaatgctgagtggaa |
32) hCV30988 |
TaqMan SNP genotyping assays (Applied Biosystems) |
|
33) rs4669526 |
5’-gtctcgatctcttgacctcatgat |
5’-aggcagctctgacttagtcctc |
34) rs4233873 |
5’-gtctcgatctcttgacctcatgat |
5’-aggcagctctgacttagtcctc |
35) GTTCCC(A/G) chr2, 10 160 531 |
5’-gtctcgatctcttgacctcatgat |
5’-aggcagctctgacttagtcctc |
36) rs4233874 |
5’-gtctcgatctcttgacctcatgat |
5’-aggcagctctgacttagtcctc |
37) hCV11796645 |
TaqMan SNP genotyping assays (Applied Biosystems) |
|
38) CGTCCC(C/T) chr2, 10 170 603 |
5’-gcacgcaagtcggaggct |
5’-cgacggcagggacgaga |
39) GG CTCC(G/A) chr2, 10 170 688 |
5’-gcacgcaagtcggaggct |
5’-cgacggcagggacgaga |
40) ATCTAC(T/G) chr2, 10 174 491 |
5’-gaggactacagttggtgatacttt |
5’-ttatgtttcaaatgccgtct |
41) CCATTA(A/G) chr2, 10 176 157 |
5’-cctggcccactgagtaagacga |
5’-accaggcagcttccacattagaga |
42) rs1130609 |
5’-aaggctgctggagtgaggggtc |
5’-cgtgtgagtgaggagcggcttc |
43) rs7587317 |
5’-gcatggagtcttggggagccta |
5’-aggagtggaagatgccgacc |
44) rs6715077 |
5’- ctcagacataaatgcacttgga |
5’- tggaaaaacatacaagacgagg |
45) rs4302193 |
5’-tcctaagaccctgtttcctgtact |
5’-ctatctggctttcactaacaccct |
46) rs6741290 |
5’- gttgtatctcttattgcgaatg |
5’- tgtaatctgaacttcttggcta |
47) RRM2 IVS8 -177 A/G, rs4668664 |
5’- tattactgagctttgcctttcc |
5’- gccatactgagagcacttgaac |
*Positions are based on UCSC Genome Browser hg17 (http://genome.ucsc.edu). Rs numbers refer to the NCBI dbSNPs and hCV refers to Celera SNPs.