HERV1_LTRd
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000167 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 535 |
| Kimura value | 6.49 |
| Tau index | 0.0000 |
| Description | LTRd (Long Terminal Repeat) of endogenous retrovirus HERV1 |
| Comment | - |
| Sequence |
TGAAGTGGGAAATTAAGAAAATAACAGAATAATAGCATAAGTAATAATAGTAAAGATTATAGTAATAGTNAGAGAAATAACAATAGCTCATAGAATGAATTGCTGTATTAACCAAGGCTAAAAAGAATTTAAGTAGCCCCCCCGAAGTTAAAGTTAGAAGAGAATATTAACTGTCTGTCCCAAGAAACATTAACCATATCTACCCTCCACATATTTTGTAGGCTCTGTAAACTCCTGTTTCTTTCTTCCCTGCACAGCTGCAAGGTCACAAGACAGATAAGCATAAGCTGCAAACCAAGTTCTCCCAGAGATGTAAGACATGTTGCAAAAGTGTCACAGCAGCCTTTGTTCTCGCTTCTGTAAGCCTGCTTCCTGCTTCACGTAGTNCCCGCCTCAAAATGCTTAAAAGGGACTCGTTTTCTTTGTTCTGGGCTCAGACTTTCAGGACACATGTCCGCTGGGCCGGTGTACACCTTAAAATAAACACTTTCCTGCACTCCGTCCGGTCTCTCCGGTTCCTTAATTTCCCGCAACA
|
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 |
|---|---|---|---|---|---|---|
| HERV1_LTRd | KAN2 | 159 | 168 | - | 14.94 | AATATTCTCT |
| HERV1_LTRd | ERR | 261 | 268 | + | 14.77 | CAAGGTCA |
| HERV1_LTRd | D | 342 | 352 | + | 14.54 | GCCTTTGTTCT |
| HERV1_LTRd | FOXD2 | 476 | 486 | + | 14.51 | TAAAATAAACA |
| HERV1_LTRd | Sox11 | 344 | 351 | - | 14.51 | GAACAAAG |
| HERV1_LTRd | Sox11 | 421 | 428 | - | 14.51 | GAACAAAG |
| HERV1_LTRd | fd59A | 477 | 486 | + | 14.43 | AAAATAAACA |
| HERV1_LTRd | NHLH1 | 253 | 261 | + | 14.41 | CACAGCTGC |
| HERV1_LTRd | Sox6 | 343 | 352 | + | 14.21 | CCTTTGTTCT |
| HERV1_LTRd | ETV2::FOXI1 | 368 | 378 | - | 14.19 | AAGCAGGAAGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
