Eutr10
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001233 |
|---|---|
| TE superfamily | ERV3 |
| TE class | LTR |
| Species | Eutheria |
| Length | 790 |
| Kimura value | 34.25 |
| Tau index | 1.0000 |
| Description | Ancient interspersed repetitive sequence from eutherian mammals. |
| Comment | TGT...ACA termini, probable 5 bp TSDs, and ERVL-like ATTAAA poly A signal at the right place suggests this is an LTR. ERVL is a very uncertain assignment. Present at orthologous sites in elephant and humans, absent from opossum. |
| Sequence |
TGTNTTGGTAGGGGTCCCCGGGACAATCCCCTTTNTGGGGCCTGGGGCCCTCCAAGCAAATGCCACTTTGTAACGAGACTTTCTTTCTTTGGTCACCAGACTGTCCCCTAAATTAGTTGAAGCCTGTAGGCCTTAAATATAAAGCTGGCTGATGCAACTTGATTATAATGCAGCAGTTTGAATTTAGGCGCNAATGCTATGTTTGAAATGTAAGAGTGTGATTGGCTTTTAGCNATATATTTTAAAAGGATTGGTGGGTTACTTGTGCCTGGGCAGCCCAGCCCCTGAATGCCTGGCCACTCTCGATAAGAGTCAGGACTACACCCAGCTGGCCCCATAAAAGGGAGGGCCCGATGGCCGTCTCTCCGGGGCAGCCTGAGGCAACAGGACACGCACCCGGTCCGCGCTGCTGCTGTTGCACCTGCTGAGACCCGCTGACGGAAGTGCTGTCCCTCCCCTGACCGGACGAGGAAGGACCCAGTTTCCTCGGGGACCCGCAGGCTGCCGGAACAACTCCNCCCCCCCTTCTCCGCCATCAGCGTGCGCCGNACCCTGCCTGGAGTGGTGAGAAACTGTAACCCTTNACTCCCCTCTTTGGCTAGGGATCCTCCCCTTTCTTCCCCACTGGGTCTNGGGAGGACGGGAGGCGGCATTAAAGCTTGCTTNTGTTTTACCCATACCTTGTGAGTCTGTGTTCTCTGTGTAAAGGCCCACTCATTTAGAGGAAAAAGAACCTGCTCTTAGTTCCACCTCTGGAACTAGAAAATTAGTCTTTAATCAGACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| Eutr10 | ETV5::FOXO1 | 380 | 389 | + | 14.50 | GGCAACAGGA |
| Eutr10 | PI | 79 | 92 | - | 14.48 | CCAAAGAAAGAAAG |
| Eutr10 | MYB80 | 110 | 121 | - | 14.48 | TTCAACTAATTT |
| Eutr10 | TFAP2E | 374 | 382 | + | 14.47 | GCCTGAGGC |
| Eutr10 | LEU3 | 432 | 441 | - | 14.37 | CCGTCAGCGG |
| Eutr10 | ATF4 | 149 | 158 | + | 14.28 | CTGATGCAAC |
| Eutr10 | ERF057 | 524 | 537 | + | 14.23 | CCTTCTCCGCCATC |
| Eutr10 | ERF104 | 521 | 536 | + | 14.23 | CCCCCTTCTCCGCCAT |
| Eutr10 | ZNF449 | 274 | 283 | + | 14.22 | CAGCCCAGCC |
| Eutr10 | NAC050 | 258 | 265 | - | 14.21 | CAAGTAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
