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 | PAX3 | 193 | 202 | - | 15.98 | TAATCAATTA |
| EUTREP15 | PAX3 | 193 | 202 | + | 15.98 | TAATTGATTA |
| EUTREP15 | atfs-1 | 224 | 233 | + | 15.96 | ATGATGCAAT |
| EUTREP15 | RAX3 | 706 | 717 | + | 15.82 | GGTGGTGGGTGC |
| EUTREP15 | DREB1E | 622 | 629 | - | 15.59 | ATGTCGGC |
| EUTREP15 | ARALYDRAFT_495258 | 523 | 530 | - | 15.43 | GGCCCCAC |
| EUTREP15 | ARALYDRAFT_484486 | 523 | 530 | - | 15.43 | GGCCCCAC |
| EUTREP15 | E2F6 | 272 | 279 | + | 15.29 | GGCGGGAA |
| EUTREP15 | FOXF2 | 119 | 127 | + | 15.28 | CGTAAACAA |
| EUTREP15 | CHES-1-like | 119 | 128 | + | 15.27 | CGTAAACAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
