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 | ZNF274 | 140 | 151 | + | 13.96 | AGTGAGTTCTCA |
| THE1D | PK24205.1 | 63 | 70 | + | 13.92 | CACGTGTC |
| THE1D | Npas2 | 62 | 69 | + | 13.77 | CCACGTGT |
| THE1D | fos-1 | 301 | 307 | - | 13.76 | TGACTCA |
| THE1D | PIF3 | 62 | 68 | + | 13.71 | CCACGTG |
| THE1D | OJ1058_F05.8 | 62 | 69 | + | 13.67 | CCACGTGT |
| THE1D | Os05g0437700 | 62 | 69 | - | 13.67 | ACACGTGG |
| THE1D | Creb3l2 | 62 | 70 | - | 13.64 | GACACGTGG |
| THE1D | GT-3a | 55 | 68 | - | 13.60 | CACGTGGGGATTAT |
| THE1D | Usf | 61 | 70 | + | 13.57 | CCCACGTGTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
