HERV1_LTRd
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000167 |
|---|---|
| TE superfamily | ERV1 |
| TE order | 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 | OSR2 | 354 | 361 | - | 14.17 | ACAGAAGC |
| HERV1_LTRd | dmd-10 | 184 | 191 | - | 14.04 | AATGTTTC |
| HERV1_LTRd | Hr39 | 261 | 268 | + | 14.02 | CAAGGTCA |
| HERV1_LTRd | FOXE1 | 476 | 487 | + | 14.00 | TAAAATAAACAC |
| HERV1_LTRd | ZFP14 | 499 | 513 | - | 13.98 | GGAGAGACCGGACGG |
| HERV1_LTRd | AT2G40260 | 159 | 168 | - | 13.92 | AATATTCTCT |
| HERV1_LTRd | pan | 414 | 427 | + | 13.91 | TCGTTTTCTTTGTT |
| HERV1_LTRd | Zm00001d027846 | 417 | 424 | - | 13.75 | AAAGAAAA |
| HERV1_LTRd | l(3)neo38 | 137 | 143 | + | 13.75 | CCCCCCC |
| HERV1_LTRd | Esrrg | 260 | 268 | + | 13.72 | GCAAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
