Table 1.
List of PCR primers used in this study
| Gene | Use | Forward (5′–3′) | Reverse (5′–3′) | Size (bp) or Region |
|---|---|---|---|---|
| Gtf2ird1 | qPCR | AAGAGAAAGAGGGTCTCTGAAGGC | CGTTTAGTCCGGAATAGTCCACCA | 148 |
| Gtf2ird1 | In situ probe | CGCAAGGACGAACTCATCAA | GAACATCAAACACTTCCTCTACC | 340 |
| Opn1mw | qPCR | ACTCAGCATCATCGTGCTCTGCTA | AGTATGCGAAGACCATCACCACCA | 140 |
| Opn1sw | qPCR | CTTTGGTCGCCATGTTTGTGCTCT | TGCTGCCGAAGGGTTTACAGATGA | 125 |
| Rho | qPCR | TCACGCTATCATGGGTGTGGTCTT | AGGAATGGTGAAGTGGACCACGAA | 193 |
| Arr3 | qPCR | TTCAGATGGTTGCTAACCTGCCCT | AACTGCACTTTCCGTACAACCAGC | 169 |
| Chx10 | qPCR | TTCAATGAAGCCCACTACCC | GTCAGGCCCAGATACAGTCC | 486 |
| Crx | qPCR | GATGTGTATGCACGTGAGGAGGTT | CCCTACGATTCTTGAACCAGACCT | 82 |
| Crx | Normal PCR for YOH | GAGGTTCCTAGGGTTAGATTGAGG | CTCTTCCAGAAGTCCTAGGTTC | 685 |
| Cux2 | qPCR | CTCTCCTTCCAACTCAACCTC | CTCGGGTCAAAGTCAGGATC | 122 |
| Dnahc7b | qPCR | TCCGCTTCTACATCACAACC | TTCCCTTGCCACTACGATTC | 137 |
| Ercc5 | qPCR | ATGAAGACCGATGAATCCCTG | ACTGCTCTGTTTAGCCTATGAC | 146 |
| Gnat1 | qPCR | ACATGCGACGTGATGTGAAGGAGA | TCAGGGCAAGAGACACACCTGAAT | 167 |
| Gnat2 | qPCR | ATGTTTGATGTGGGAGGGCAGAGA | CCGCAAAGAACTTGTGGTTGCAGA | 190 |
| Haus8 | qPCR | TTCTCCGGCAGAAACATCAG | GCCCAGTGTCATGTATTCCTC | 113 |
| Hdac2 | qPCR | ATATGGCTGTCAATTGGGCTGGAG | ACGGTCATCACGCGATCTGTTGTA | 199 |
| Nr2e3 | qPCR | CATCCATGAGACATCTGCTCG | AGCTCATTCCATGCCTCTTC | 123 |
| Nrl | qPCR | TGCCTCCTTCACCCACCTTCA | GCACAGACATCGAGACCAGC | 288 |
| Pdc | qPCR | GACCTAGAGCAGACCAACATG | CAGGCCCATATTTAGTGTTTGC | 147 |
| Ppara | qPCR | GTACTGCCGTTTTCACAAGTG | TCTTTCAGGTCGTGTTCACAG | 129 |
| Stat3 | qPCR | CCAACGACCTGCAGCAATACCATT | AGCTTCTGGTTTCAGCTCCTCACA | 190 |
| Opn1mw | ChIP | CTCAGTTTTGCCCTGCCTG | TCTCTCCTCCTTCACCCTTTAC | LCR |
| ChIP | TGAGCCACCCCTGTGGATTG | GGAACCTGTCAGACTTGGCAC | PR | |
| ChIP | CAGAGACCATTATTGCCAGCAC | TGAACACCATTTGTGAACCCC | Int 2 | |
| ChIP | TTCGGGTGAATGGCACTTC | ATTGGGCTTGGGACTTTGG | 3′ end | |
| Opn1sw | ChIP | CCAGCCTGATTTCTCTTACACC | TGCTTCTCCCAGACTATGTGAG | Ups |
| ChIP | CACTCATCCTCTTCCTGTTTCC | GGTCAGTATTGGTTTCTGTGGC | PR | |
| ChIP | GGTCCTGGCTACTTGGATTATTG | GAGAACTGGAAGAATGGGCTTAG | Int 2 | |
| ChIP | TTACACCTGCTGCTCCTGG | CCCTCACACTTAGTCCTTTGC | 3′ end | |
| Rho | ChIP | CCAGGGTCAGAATCAGAACC | GCAGGTGTCTTGTTTGGGAAC | RER |
| ChIP | GGGGCAGACAAGATGAGACAC | TTCGTAGACAGAGACCAAGGC | PR | |
| ChIP | TGGGCGTGTGTTCTCTTCC | CCTGCTCATACCTCCTTGACTG | Int 2–3 | |
| ChIP | CTGTGGCTTGAAAGTAGGAGTC | GGTCTTGGTGGATGGATGTC | 3′ end |