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 | ZNF140 | 792 | 810 | + | 18.07 | AGGAGCAGAACCGCAGGGT |
| EUTREP15 | FKH1 | 116 | 128 | + | 17.94 | AATCGTAAACAAA |
| EUTREP15 | ATF4 | 224 | 233 | + | 17.50 | ATGATGCAAT |
| EUTREP15 | CEBPG | 224 | 233 | + | 17.31 | ATGATGCAAT |
| EUTREP15 | gsb | 193 | 202 | + | 17.18 | TAATTGATTA |
| EUTREP15 | TFAP4::ETV1 | 545 | 557 | + | 17.06 | CCGGAAGCAGACG |
| EUTREP15 | Pax7 | 193 | 202 | - | 16.63 | TAATCAATTA |
| EUTREP15 | TCX6 | 282 | 296 | + | 16.54 | ATTTAAATGTTTAAA |
| EUTREP15 | GATA1::TAL1 | 381 | 397 | - | 16.38 | TTATCACTTAGGGACAG |
| EUTREP15 | ZNF610 | 526 | 535 | + | 16.16 | GGGCCGCTCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
