THE1D
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000820 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 381 |
| Kimura value | 10.85 |
| Tau index | 0.9642 |
| Description | THE1D Long Terminal Repeat for ERVL-MaLR endogenous retrovirus |
| Comment | THE1D is 80% similar to THE1A, 84% to THE1B, and 89% to THE1C. |
| Sequence |
TGATATGGTTTGGCTGTGTCCCCACCCAAANTCTCATCTCGAATTGTAATCCCCATAATCCCCACGTGTCGAGGGAGGGACCTGGTGGAGGTGATTGGATCATGGGGGCGGTTTCCCCCATGCTGTTCTCGTGATAGTGAGTGAGTTCTCACGAGATCTGATGGTTTTATAAGTGTCTGGCAGNTTTCCCCTGCNCTCACNCTTCTCTCTCCTGCCGCCNTGTGAAGAAGGTGCTTGCTTCCCCTTCGCCTTCCGCCATGATTGTAAGTTTCCTGAGGCCTCCCCAGCCATGCGGAACTGTGAGTCAATTAAACCTCTTTCCTTTATAAATTACCCAGTCTCGGGTAGTTCTTTATAGCAGTGTGAAAACGGACTAATACA
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| THE1D | ZNF701 | 114 | 130 | - | 13.57 | GAGAACAGCATGGGGGA |
| THE1D | YY2 | 253 | 259 | - | 13.54 | ATGGCGG |
| THE1D | Trl | 203 | 211 | - | 13.51 | GAGAGAGAA |
| THE1D | nuc-1 | 62 | 68 | + | 13.51 | CCACGTG |
| THE1D | EREB71 | 104 | 113 | - | 13.42 | AACCGCCCCC |
| THE1D | BHLH72 | 61 | 69 | + | 13.38 | CCCACGTGT |
| THE1D | NFYA | 91 | 98 | - | 13.28 | CCAATCAC |
| THE1D | HEY1 | 61 | 70 | + | 13.27 | CCCACGTGTC |
| THE1D | TFAP2C | 271 | 279 | + | 13.25 | TCCTGAGGC |
| THE1D | KLF7 | 20 | 27 | - | 13.19 | GGGTGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
