LTR9B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000623 |
|---|---|
| TE superfamily | ERV1 |
| TE order | LTR |
| Species | Haplorrhini |
| Length | 644 |
| Kimura value | 9.68 |
| Tau index | 0.9765 |
| Description | LTR9B (Long Terminal Repeat) for ERV1 endogenous retrovirus |
| Comment | LTR9B is similar to LTR9 over its full length and is found flanking closely related internal sequences (mostly HUERS-P3b). 4 bp TSDs. HUERS-P3 LTR. |
| Sequence |
TGTTGTAGGAGTTATTAAGAAATTATTTTAGGCAGATAGAGAGGAAAAGGGGTCCTTGGGAAGTTTTCGTTTCTTTTTAAAGCAGCTCCAGAAACGTTTCTTGTCTAGCAGGAAAGCCCCGGCTCTTAGAGCCGGGCCGGCAACCTTTGATATGCAAATGCAGGCCATTAGAAACTGGGTCCACCCAACATGGCGATTCCCGCCGTCGTCTTCTTGCCCTTGCCCCACATGTGCCTGGCAACATGGCCGCCCCCACATATCCCCACGTGTGTAGAACATCATGGCGCCCTGCATTTGCATATTAAAAGGCTAGGGTGGGAGGGCCAGTTTTTTCGCGGGCTACGTGAATGACATGCCTGGTCAAACCAATCCCCTGAGCCCTATGCAAATCAGACACCGCCTCCTCCAGCCTCCTCATATAACTGGCTGGTNTCCGCCGCACNCGGGGTTTCCTCTCTCGGCTTTGGAGCCCCCCTCCCTCTGTCTCTGTACGGGGGAGCTTCTTCCTTCTTTCTTCTCCCTTCTTTCTTGCCTATTAAACTCTCCGCTCCTTAAAACCACTCCACGTGTGTCCGTGTCGTTTTATCTAANTCGGCGCGAGGACCAAGAACCCTGGTGTTCCTCCACTCATCGGAGCCGTATCA
|
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 |
|---|---|---|---|---|---|---|
| LTR9B | BZR2 | 261 | 270 | - | 15.00 | ACACGTGGGG |
| LTR9B | POU3F2 | 150 | 161 | + | 14.95 | ATATGCAAATGC |
| LTR9B | POU3F2 | 291 | 302 | - | 14.95 | ATATGCAAATGC |
| LTR9B | POU2F1 | 151 | 159 | + | 14.94 | TATGCAAAT |
| LTR9B | POU2F1 | 293 | 301 | - | 14.94 | TATGCAAAT |
| LTR9B | POU2F1 | 382 | 390 | + | 14.94 | TATGCAAAT |
| LTR9B | EREB71 | 395 | 404 | + | 14.93 | CACCGCCTCC |
| LTR9B | POU3F1 | 150 | 159 | + | 14.90 | ATATGCAAAT |
| LTR9B | POU3F1 | 293 | 302 | - | 14.90 | ATATGCAAAT |
| LTR9B | ci | 315 | 325 | - | 14.82 | GGCCCTCCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
