EUTREP15
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001217 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Eutheria |
| Length | 866 |
| Kimura value | 31.38 |
| Tau index | 0.0000 |
| Description | Conserved repetitive element present in placental mammals. |
| Comment | TG..CA termini and presence of AATAAA at appropriate place (pos 721-726) suggests LTR. |
| Sequence |
TGTCCTGGGGCAATACTGGAAAATCCCTTTTAAAGGGCCAGTTTGCCCCTGGCAAGAAACTTTGTAATGCTTCCCCAGGTGATTAGTTTCGGGAGGTCATTTTAGTAGGCCTGATAATCGTAAACAAATTATTTTGAAGTGATGATTTAAATTGTGTATTGGCAGGAATTGAATATTCAAGTGTAATGAGTTTAATTGATTATAAGAGAGTGTTTCTTTTGAGATGATGCAATAACTGCCGGTGTTGAGTTTGCTGTTTGAAATGCGCGCCGGCGGGAANGATTTAAATGTTTAAAGTATTTGAATTGTATTGGTTGTAAGAGAGTGCATTTAAAATATGTAAAAGTGATTGGCTCCCTCTGTAGCCCCGGGTGCAGCATCTGTCCCTAAGTGATAAGGCGTCGGTTAACGCCCTAAAGCCCCCATAAAAGNGGCCGCTTTGCCCCGATCAAAACGGGGCAGTCACTTCGACAGAGCCTTGAGTTCCGGTCACGGTGGTCTGTCTCTGAAGAACTCCAGCTGGTGGGGCCGCTCCTCTCCCAAGCCGGAAGCAGACGACCCAGCGTCTGGAGAGCCCAAGACTGCCAGGACNCGCGTTCCCCATCCTTCTCCACCTGCTGCGCCGACATCGGGAGGGTAAAAGTGTGTTGTGTTGTGTGTGGTGCTAAAACCCTCCACACCTCCCTTGAGGGTCTGGGACTTAGGGGTGGTGGGTGCCGGCAATAAAGAGTGTATGTGCTTGAATGTCCATTTTCCTNTGTGAATCATTACCTTACGGTGCCACGGCATGCAGGAGCAGAACCGCAGGGTTTAATACAGAGGAGAATCGCGCCTCAATCCTTCCCTTTGGAAGGAACCCTAAAACA
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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 |
|---|---|---|---|---|---|---|
| EUTREP15 | ARALYDRAFT_493022 | 523 | 530 | - | 14.64 | GGCCCCAC |
| EUTREP15 | KAN4 | 171 | 178 | + | 14.59 | GAATATTC |
| EUTREP15 | KAN4 | 171 | 178 | - | 14.59 | GAATATTC |
| EUTREP15 | DREB1C | 622 | 629 | + | 14.46 | GCCGACAT |
| EUTREP15 | TBF1 | 855 | 862 | + | 14.43 | AACCCTAA |
| EUTREP15 | Ets96B | 544 | 552 | + | 14.43 | GCCGGAAGC |
| EUTREP15 | Ebf4 | 72 | 82 | + | 14.40 | TCCCCAGGTGA |
| EUTREP15 | ERF025 | 621 | 628 | + | 14.28 | CGCCGACA |
| EUTREP15 | Glyma19g26560.1 | 523 | 530 | - | 14.23 | GGCCCCAC |
| EUTREP15 | GLYMA19G26560 | 523 | 530 | - | 14.23 | GGCCCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
