THE1B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000818 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 364 |
| Kimura value | 9.49 |
| Tau index | 0.8640 |
| Description | THE1B Long Terminal Repeat for ERVL-MaLR endogenous retrovirus |
| Comment | An LTR of the THE1B retrovirus-like MaLR element. Has 5 bp TSDs. This subfamily is an intermediate between THE1A and THE1C, and is 90% similar to both over the entire length. |
| Sequence |
TGATATGGTTTGGCTGTGTCCCCACCCAAATCTCATCTTGAATTGTAGCTCCCATAATTCCCACGTGTCGTGGGAGGGACCCGGTGGGAGGTAATTGAATCATGGGGGCGGGTCTTTCCCGTGCTGTTCTCGTGATAGTGAATAAGTCTCACGAGATCTGATGGTTTTATAAAGGGGAGTTCCCCTGCACANGCTCTCTTGCCTGCCGCCATGTAAGACGTGNCTTTGCTCCTCCTTCGCCTTCCGCCATGATTGTGAGGCCTCCCCAGCCACGTGGAACTGTGAGTCCATTAAACCTCTTTCCTTTATAAATTACCCAGTCTCGGGTATGTCTTTATCAGCAGCGTGAAAACGGACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| THE1B | Creb3l2 | 269 | 277 | + | 15.25 | GCCACGTGG |
| THE1B | LRL2 | 53 | 67 | + | 15.20 | CATAATTCCCACGTG |
| THE1B | BMY2 | 59 | 69 | - | 15.15 | GACACGTGGGA |
| THE1B | Sp1 | 104 | 112 | - | 15.10 | CCCGCCCCC |
| THE1B | DPBF3 | 269 | 279 | - | 14.98 | TTCCACGTGGC |
| THE1B | Bteb2 | 102 | 114 | - | 14.90 | GACCCGCCCCCAT |
| THE1B | HY5 | 268 | 279 | + | 14.90 | AGCCACGTGGAA |
| THE1B | HY5 | 268 | 279 | - | 14.90 | TTCCACGTGGCT |
| THE1B | BZR2 | 59 | 68 | - | 14.84 | ACACGTGGGA |
| THE1B | PIF4 | 269 | 276 | - | 14.80 | CACGTGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
