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 | NR1I3 | 319 | 326 | - | 13.04 | TGAACTTT |
| Eutr2 | NAC053 | 380 | 386 | - | 13.01 | CAAGAAA |
| Eutr2 | NAC078 | 380 | 386 | - | 12.96 | CAAGAAA |
| Eutr2 | cebp-1 | 389 | 399 | - | 12.94 | AATTCGAAATA |
| Eutr2 | Rhox11 | 182 | 190 | - | 12.89 | TGCTGTAAA |
| Eutr2 | HNF4A | 318 | 326 | + | 12.87 | CAAAGTTCA |
| Eutr2 | HNF4G | 318 | 326 | + | 12.75 | CAAAGTTCA |
| Eutr2 | rib | 543 | 551 | - | 12.74 | TGCAAAATA |
| Eutr2 | Zfx | 305 | 314 | + | 12.70 | GCCGTGGCCT |
| Eutr2 | NAC004 | 380 | 386 | - | 12.69 | CAAGAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
