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 | MYOG | 254 | 261 | + | 13.47 | ACAGCTGC |
| HERV1_LTRd | D | 77 | 87 | - | 13.30 | GCTATTGTTAT |
| HERV1_LTRd | Sox7 | 343 | 352 | - | 13.18 | AGAACAAAGG |
| HERV1_LTRd | ARF14 | 443 | 458 | + | 13.18 | CAGGACACATGTCCGC |
| HERV1_LTRd | SOX4 | 343 | 350 | - | 13.17 | AACAAAGG |
| HERV1_LTRd | Sox17 | 343 | 352 | - | 13.15 | AGAACAAAGG |
| HERV1_LTRd | NR2F2 | 262 | 268 | + | 13.14 | AAGGTCA |
| HERV1_LTRd | nhr-25 | 261 | 268 | + | 13.07 | CAAGGTCA |
| HERV1_LTRd | NAC053 | 181 | 187 | + | 13.01 | CAAGAAA |
| HERV1_LTRd | NAC078 | 181 | 187 | + | 12.96 | CAAGAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
