Table 1.
Nucleotide sequences of hemi-methylated DNA
| Spacing (bp) | Figures | DNA sequences |
|---|---|---|
| Synthetic 75 bp DNAs containing two hemi-sites | ||
| 11a | Figure 2C | 5′-ctgggtattaaaaagaagatctatttatgatcagttctgttctgttctgttctcttattaggctcgcactgccct-3′ |
| 5′-agggcagtgcgagcctaataagagaacagaacagaacagaactgatcataaatagatcttctttttaatacccag-3′ | ||
| 21a | Figure 2A and Figure 4A | 5′-ctgggtattaaaaagaagatctatttatgttcagttctgatctgttctgttctcttattaggctcgcactgccct-3′ |
| 5′-agggcagtgcgagcctaataagagaacagaacagatcagaactgaacataaatagatcttctttttaatacccag-3′ | ||
| 31a | Figure 2D | 5′-ctgggtattaaaaagaagatctatttatgttcagttctgttctgttctgatctcttattaggctcgcactgccct-3′ |
| 5′-agggcagtgcgagcctaataagagatcagaacagaacagaactgaacataaatagatcttctttttaatacccag-3′ | ||
| 16a | Figure 2E | 5′-ctgggtattaaaaagaagatctatttatgttcagatctgttctgttctgttctcttattaggctcgcactgccct-3′ |
| 5′-agggcagtgcgagcctaataagagaacagaacagaacagatctgaacataaatagatcttctttttaatacccag-3′ | ||
| 16a | Figure 3A | 5′-ctgggtattaaaaagaagatctatttatttagagatctgttctattgtgatctcttattaggatcgcactgccct-3′ |
| 5′-agggcagtgcgatcctaataagagatcacaatagaacagatctctaaataaatagatcttctttttaatacccag-3′ | ||
| DNAs containing four hemi-sites | ||
| 16b | Figure 3B and Figure 4B | 5′-agctccaccgcggtggcggccgctctagaactagtggatccgactgtgatccatggagctagcgatctcttattacgatccaattgtaccaagctactggaattcgatatcaagcttatcgataccgtcgacctcgagggggggcccggtac-3′ |
| 5′-cgggccccccctcgaggtcgacggtatcgataagcttgatatcgaattccagtagcttggtacaattggatcgtaa taagagatcgctagctccatggatcacagtcggatccactagttctagagcggccgccaccgcggtgg-3′ | ||
| 19b | Figure 3C | 5′-gcggtggcggccgctctagaactagtggatccgactgtgatccatggccgagctagcgatctcttattacgatccaattgtaccaagctactggaattcgatatcaagcttatcgataccgtcgacctcgagggggggcccggtac-3′ |
| 5′-cgggccccccctcgaggtcgacggtatcgataagcttgatatcaattccagtagcttggtacaattggatcgtaataagagatcgctagctcggccatggatcacagtcggatccactagttctagagcggccgccacc-3′ | ||
| 32b | Figure 4C | 5′-ctagaactagtggatccgactgtgatccatggggaaacagctatgaggagctagcgatctcttattacgatccaattgtaccaagctactggaattcgatatcaagcttatcgataccgtcgacctcgagggggggcccggtac-3′ |
| 5′-cgggccccccctcgaggtcgacggtatcgataagcttgatatcaattccagtagcttggtacaattggatcgtaataagagatcgctagctagctcctcatagctgtttccccatggatcacagtcggatccactagtt-3′ | ||
| 41b | Figure 3D | 5′-ctagaactagtggatccgactgtgatccatggggaaacagctatgaggatgagtacgcgctagcgatctcttattacgatccaattgtaccaagctactggaattcgatatcaagcttatcgataccgtcgacctcgagggggggcc-3′ |
| 5′-ccccctcgaggtcgacggtatcgataagcttgatatcaattccagtagcttggtacaattggatcgtaataagagatcgctagcgcgtactcatcctcatagctgtttccccatggatcacagtcggatccactagtt-3′ | ||
The GATC sequences containing N6-methyladenine are underlined. The spacing is given as the number of nucleotides from one modified adenine residue to the next. The top and bottom strands of synthetic 75 bp DNAs were annealed as previously described (20). DNAs containing four hemi-sites were prepared from fully methylated and unmethylated plasmids harboring each fragment, as previously described.
aThe spacing between two hemi-sites.
bThe spacing between the second and the third hemi-sites.