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 | ZNF701 | 606 | 622 | - | 14.21 | GGGAAGAAAGGGGAGGA |
| Eutr10 | TfAP-2 | 40 | 48 | - | 14.19 | GCCCCAGGC |
| Eutr10 | TfAP-2 | 40 | 48 | + | 14.18 | GCCTGGGGC |
| Eutr10 | CHA4 | 527 | 534 | - | 14.15 | GGCGGAGA |
| Eutr10 | CTCF | 444 | 474 | + | 14.09 | GTGCTGTCCCTCCCCTGACCGGACGAGGAAG |
| Eutr10 | TFAP2E | 40 | 48 | - | 14.08 | GCCCCAGGC |
| Eutr10 | TFAP2E | 40 | 48 | + | 13.98 | GCCTGGGGC |
| Eutr10 | MYB39 | 110 | 121 | - | 13.95 | TTCAACTAATTT |
| Eutr10 | Zic1::Zic2 | 421 | 427 | - | 13.93 | CAGCAGG |
| Eutr10 | ZNF682 | 275 | 285 | + | 13.92 | AGCCCAGCCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
