EUTREP15
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001217 |
|---|---|
| TE superfamily | ERV1 |
| TE order | 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 | FOXN3 | 120 | 127 | + | 15.19 | GTAAACAA |
| EUTREP15 | HAP3 | 347 | 355 | + | 15.11 | TGATTGGCT |
| EUTREP15 | crc | 223 | 233 | + | 15.07 | GATGATGCAAT |
| EUTREP15 | Foxj3 | 120 | 128 | + | 15.06 | GTAAACAAA |
| EUTREP15 | DREB1B | 622 | 629 | + | 14.96 | GCCGACAT |
| EUTREP15 | Dif | 18 | 27 | - | 14.92 | GGGATTTTCC |
| EUTREP15 | Dif | 18 | 27 | + | 14.80 | GGAAAATCCC |
| EUTREP15 | SOL1 | 282 | 296 | - | 14.79 | TTTAAACATTTAAAT |
| EUTREP15 | ERF021 | 621 | 628 | + | 14.75 | CGCCGACA |
| EUTREP15 | TFDP1 | 272 | 279 | + | 14.70 | GGCGGGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
