Eutr2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001206 |
|---|---|
| TE superfamily | MuDR |
| TE class | DNA |
| Species | Eutheria |
| Length | 940 |
| Kimura value | 25.01 |
| Tau index | 0.0000 |
| Description | Ancient interspersed repetitive sequence from eutherian mammals. |
| Comment | Pos 13-125 bp of the 250-300 bp long TIRs are ~8 copies of ATTCGCCGAAARYCA. Full TIRs are shared with a longer element named Eutr2B. Not present in opossum. |
| Sequence |
GGCTCTAGGTCAATTCGCCGAAAATCAATTCGCCAAAAGCCAATTCGCCGAAAATCAATTCGCCGAAAGACCAATTCGCCGAAAGCCAATTCGCCGAAAATCAATTCGCCGAATGACCAATTCGCCAATTTACCGAATTACCGATTCACCAAAAACTTGTTTCTATTAACTACTTATAAAGTTTACAGCAATTCGTGTTGCATGGGATGGTTTCAACAGCCTTTGAGGATTTTTTTCGAAGTTTTCATTTGAGTTTAGTTNAGTTTTAGTTTNAGTTTATTTCCAGTTTCGCCACAGCCGTTTCGCCGTGGCCTGGCCAAAGTTCAGTGTATTTCTAGGTTTTTCTGTACTTTGGGTCTATGACTTTTGGGAATGAGAATTTCTTGTGTATTTCGAATTTCAGGCGTTGTGCATGTCNCGAATGTCAAGGATTTTATAAACGATAGGGCGGGTTTCTCTCTTCCAACACATTTTCAATCCAGTCCACTGCCTTTTNTACTTCTCTTAATTCACGGATTTGTTAACCGGCTCGATCAAATGAATATTTTGCATNTGTTTTAAGCATTTGAGAAGTGCTCAGCGTCTGAAATGTGAAACACACGCGAAATTGACATTCAACTGAGCTGGACTGACAAATCCACTGCGAAATGGCTGGGGTGAAACGGCTACGGCGAAACTAAAACNAAATNAAAACNAGTCAACTAAAACTTCGCAAAAATCCTCAAAGGCTGTTAAAACCATCCCATCCAATACGAATTGCTATAAACTTTATAAATAGTTAAAAGAAACAAGTTTTTGGTAAATTGGTAATTTGGCGAATTGGTCATTCGGCGAATTGGCTTTCGGCGAATTGGCTTTCGGCGAATTGGTCTTTCGGCGAATTGATTTTCGGCGAATTGGCCATTCGGCAAATTGGCTTTCGGCGAATTGNCCTAGAGCC
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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 |
|---|---|---|---|---|---|---|
| Eutr2 | nfi-1 | 804 | 818 | + | 14.84 | TTGGTAATTTGGCGA |
| Eutr2 | nfi-1 | 804 | 818 | - | 14.71 | TCGCCAAATTACCAA |
| Eutr2 | dsf | 361 | 368 | - | 14.52 | AAAAGTCA |
| Eutr2 | Trl | 454 | 462 | - | 14.34 | AAGAGAGAA |
| Eutr2 | SWI4 | 600 | 607 | + | 14.33 | ACGCGAAA |
| Eutr2 | DOF5.1 | 773 | 791 | + | 14.30 | AAATAGTTAAAAGAAACAA |
| Eutr2 | CDC5 | 575 | 583 | + | 14.13 | GCTCAGCGT |
| Eutr2 | nfi-1 | 122 | 136 | + | 14.00 | TCGCCAATTTACCGA |
| Eutr2 | nfi-1 | 122 | 136 | - | 14.00 | TCGGTAAATTGGCGA |
| Eutr2 | Eip75B | 3 | 12 | + | 13.93 | CTCTAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
