Table 4.
Triplex forming domains (TFDs) of lncRNAs. (A) Table indicates the number of triplex forming domains/oligos (TFDs) in lncRNAs. Isoforms are separated for lncRNAs with multiple isoforms. (B) Table indicates locations and sequence of triplex forming domains for two example lncRNAs: Human HOTAIR, and mouse MEG3 isoform NR_027652.1. Bolded TFDs have been experimentally validated by previous studies.
| A | |||
|---|---|---|---|
| lncRNA | Triplex forming domain count | ||
| Hotair | 7 | ||
| Rox2 | 1 | ||
| Terc | 4 | ||
| DACOR1 | 30 | ||
| lincHSC2 | 5 | ||
| Hotchon (Limb) | 14 | ||
| Hotchon (Glial) | 13 | ||
| RMRP | 1 | ||
| Tug1 (NR_002321.2) | 64 | ||
| Tug1 (NR_002322.2) | 95 | ||
| Tug1 (NR_110490.1) | 67 | ||
| EC7 | 2 | ||
| MEG3 (NR_003633.3) | 114 | ||
| MEG3 (NR_027651.2) | 112 | ||
| MEG3 (NR_027652.1) | 11 | ||
| Lin28 | 15 | ||
| Panct1 |
65 |
||
| B | |||
| LncRNA |
Starting |
Ending |
Sequence |
| Hotair | 422 | 436 | GAGAGGAAGGAGGG |
| 669 | 683 | AGAGGAGGGAAGAG | |
| 800 | 816 | TGTATTTTTATTTTTT | |
| 836 | 853 | ATGAGGAAAAGGGAAAA | |
| 1388 | 1402 | GTGTGTTTTGTTGG | |
| 1482 | 1494 | GGGGTTGTGTAG | |
| 2009 | 2025 | AAGAACAGAAAAAAAA | |
| NR_027652.1 (Meg3) | 197 | 209 | CCTCTACCTCCT |
| 650 | 675 | GTGGGTGGGGTGGGGTGGGGTGCTT | |
| 710 | 734 | CATGTCCCCTCCCCCTCCTCCACC | |
| 758 | 770 | GGGGTAGTGGGG | |
| 788 | 803 | TAGGGTTGTTGTGAG | |
| 974 | 989 | AGGTGGGAAAGAGAA | |
| 1091 | 1115 | TCGCTGCTTTCCTTCCTCACCTCC | |
| 1281 | 1293 | TTTGCTGTTGTG | |
| 1360 | 1373 | GAAGAAAAGAAGA | |
| 1742 | 1760 | TTGGGGGGGTGGGAGAAA | |
| 1822 | 1836 | GGGCTGTTGTGAGG | |