EUTREP8
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001234 |
|---|---|
| TE superfamily | Long_Terminal_Repeat_Element |
| TE order | LTR |
| Species | Eutheria |
| Length | 593 |
| Kimura value | 33.39 |
| Tau index | 0.0000 |
| Description | Conserved repetitive element present in placental mammals. |
| Comment | Termini with short TIRs and AATAAA signal at appropriate place (439-444) suggests this is an LTR. Present in Eutheria; absent in marsupials. |
| Sequence |
TGTTGGGGTCTTAGGGATTGATTCTTATAGGTTTAATATAGCTATAGTTAATGGCTTATAGATTGTTGTATAGTCAGGCCCTGCTAGAAGTGTCTATTAAGGCTGGCAGTGGGAACCAGGAGGTCAAAGGGCCTGGGACAGATGCATGGCCTTCCTCCGAGCCAGGCTGGGAAAACACTCCCTGACAAGATACCATAGTTCTTGTGTACTCCTGAAACCTTGAGAGATAAAGAGGGAGCCTTCAGGCGGGCGCCATAAGAGATACGAAGGAATTTTGCAGCTGTGGGCCTCTGAGAATAAGAACGTATTGTTTCACAGTGTGCTGATGATGTCATCTGGGGTATAAAACACTGAGAGCTGCCCCGGTGCGGGGCTGTTCTCTGACCGGTGTGTCCGAAGCAGACCCGGTCACAGTGCANGTCAAGCAGAGGTGGCGGCCAATAAAGTCGTGCTTGCTTCAGTCTGTTCCATCTCCGGACCATTCGTCTGCCCTCCTCCCTTTCTTCCCCTTCCCGGGTTTGGATCTCTAGGTCTGGGGCCTGAAACCCCAGAGGGCGCGGATCCGGTCTTCCTTCCCCTCCCNCGCCCCAACA
|
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 |
|---|---|---|---|---|---|---|
| EUTREP8 | EWSR1-FLI1 | 563 | 580 | - | -11.80 | GAGGGGAAGGAAGACCGG |
| EUTREP8 | EWSR1-FLI1 | 482 | 499 | - | -11.95 | GGGAGGAGGGCAGACGAA |
| EUTREP8 | AT4G12670 | 7 | 35 | - | -13.56 | TAAACCTATAAGAATCAATCCCTAAGACC |
| EUTREP8 | ZSCAN16 | 163 | 180 | - | -21.21 | GAGTGTTTTCCCAGCCTG |
| EUTREP8 | BPC5 | 485 | 514 | - | -44.01 | GGGAAGGGGAAGAAAGGGAGGAGGGCAGAC |
| EUTREP8 | BPC5 | 215 | 244 | + | -45.16 | AAACCTTGAGAGATAAAGAGGGAGCCTTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
