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 | GRF4 | 406 | 413 | - | 15.23 | GCAGCAGC |
| Eutr10 | TFAP2B | 40 | 48 | - | 15.18 | GCCCCAGGC |
| Eutr10 | Plagl1 | 330 | 337 | - | 15.15 | TGGGGCCA |
| Eutr10 | HAP3 | 219 | 227 | + | 15.11 | TGATTGGCT |
| Eutr10 | ASCL1 | 418 | 426 | + | 14.95 | GCACCTGCT |
| Eutr10 | RAP2-6 | 524 | 538 | - | 14.82 | TGATGGCGGAGAAGG |
| Eutr10 | TCF4 | 418 | 425 | + | 14.77 | GCACCTGC |
| Eutr10 | ZBTB24 | 37 | 46 | - | 14.60 | CCCAGGCCCC |
| Eutr10 | bs | 335 | 344 | + | 14.56 | CCATAAAAGG |
| Eutr10 | TFAP2E | 374 | 382 | - | 14.51 | GCCTCAGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
