Table 1. List of oligonucleotides.
(1a) All oligonucleotides used in this study are listed. Forward (F) and reverse (R) primers used for amplification of minimal promoters and test regions are given. (1b) For primers used in mutagenesis, only the forward primer is listed, with the mutated site bold and underlined. Complementary oligonucleotides were used as reverse primers. (1c) For oligonucleotides used in EMSA, only the sense strand is shown.
| Oligo | Sequence | Description |
|---|---|---|
| a. Primers for reporter plasmid constructs | ||
| HE3475 | GTGGTACCGGGCTTTTCTCTATTATTTTA | 4 Basal _F |
| HE2492 | CCCTCGAGAAGCTTCAAACTCCTACCCA | 4 Basal _R |
| HE3639 | GTGGTACCAATCCAGTGGGTGTGGC | 1 Basal _F |
| HE3640 | CCAAGCTTGTCTTCTCTGCCCACCAG | 1 Basal _R |
| HE3641 | GTGGTACCCTGCGATCTGCATCTCAATTA | SV40 Basal _F |
| HE3642 | CCAAGCTTAGTACCGGAATGCCAAGC | SV40 Basal _R |
| HE3481 | CGGGATCCCAAGCCAGAATGAAAAGGTAGAC | 4E _F |
| HE3482 | CCAAGCTTAGCCAGAGCACAAATAATGGAG | 4E _R |
| HE3623 | CGGGATCCCCAAGCCAGAATGAAAAGGTA | 4E1 _F |
| HE3633 | GCGTCGACTTGCGATTTCTCTGGGATG | 4E1 _R |
| HE3627 | CGGGATCCTCAGGTCCATTCTGTGAACG | 4E2 _F |
| HE3635 | GCGTCGACTGTAGTCTCCCCTCTCTTGCTG | 4E2 _R |
| HE3629 | CGGGATCCCAGATAACAGCAAGAGAGGGG | 4E3 _F |
| HE3636 | GCGTCGACCAGCCAGAGCACAAATAATGG | 4E3 _R |
| b. Site directed mutagenesis primers | ||
| HE3825 | TTCAAGATCAGCAATTTGACACACCCGTTGAACTTTGTAATCAAACAGAC | Site 1 mutant |
| HE3843 | AATCAAACCTCTGCTTCCCTACACCCGTCTGAAAAGATCAAACGGG | Site 2 mutant |
| HE3876 | GCACAGCCCCTAATTTGTTAATATGTTACATAATACTTACCTCACAGGGTT | Site 3 mutant |
| HE3872 | GCATGTTGTCTACCCCCATAATATGTTACATAATACTTACCTCACAGGGTT | Site 4 mutant |
| HE3874 | GTAAGCATGTTGTCTTATTCACCCGTATGTTACATAATACTTACCTCAC | Site 5 mutant |
| HE3823 | AGTTTCTTCCCACTAAATAAAACACCCGTGAAGTTTTCTCTTAGCTAACA | Site 6 mutant |
| HE3881 | CACAGCCCCTAACCCCCATAATATGtTACATAATACTTACCTCACAGGGTT | Sites 3 and 4 mutant |
| HE3817 | CCCAAATTTCATCGAACATCCTAAAACTTTCAAGATC | rs7678936 T allele |
| HE3819 | GTTGTCTTATTTGTTAATATGGTACATAATACTTACCTCACAG | rs7678890 G allele |
| HE3821 | GTCTCTTTTCTGGAAAATCAGAGATCTGTCATTG | rs11401494 T allele |
| c. Oligos for EMSA | ||
| HE3781 | 5’6-FAM-TTTCAAGATCAGCAATTTGACAGCAAACATGAA CTTTGTA | EMSA Oligo 1 |
| HE3782 | 5’6-FAM-CTGCTTCCCTAACAAACACTGAAAAGATCAA | EMSA Oligo 2 |
| HE3941 | 5’6-FAM-TAAGCATGTTGTCTTATTTGTTAATATGTTACAT AATAC | EMSA Oligo 3 |
| HE3784 | 5’6-FAM-TTAGTTTCTTCCCACTAAATAAAAACAAACAGAA GTTTTC | EMSA Oligo 4 |
| HE3918 | GCCCATTGTTTGTTTTAAGCC | HNF-3 consensus |
| HE3829 | TCCCATACCCCCATTTAAGCC | HNF-3 consensus mutated |