HERV1_LTRb
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000165 |
|---|---|
| TE superfamily | ERV1 |
| TE order | LTR |
| Species | Catarrhini |
| Length | 511 |
| Kimura value | 5.98 |
| Tau index | 0.0000 |
| Description | LTRb (Long Terminal Repeat) of endogenous retrovirus HERV1 |
| Comment | - |
| Sequence |
TGAAGGGGGAATTAATGAATTTTATAAGTATAATAGTCGAGAAATTTATTCTTTTCCTTGAAGGTAGAATGTAATATAGCCCCCCAACCCGGAGGCCTGGGTTAAGAGAGAATATTAACTGCTTATTTCTCCTCTATGCNCAGAGAGGCTTATCTGTGTTCCATCGTTTCACATTCCTTGAGGCACGGCGAGTTCTTGCTTCCCTCCCTAGCGCGGCTGTAAAGTCACAAGGTTGATAAGCAANTGCTACAAAAGCATGTATTCCCAAGGATGTAAGACATGTGGTGTAACAAATGTAAAAGAGTAATTAACTGCCTTTGTTCTCGCTTCCGCAAGTACGCTTCCTGCAGCACGTAACTCCCGCCACAAACTGCTTAAAAGGTGATTGATCCCTTTGTTCGGGGCTCAGACTTTCTGGACCCTAGTCCGACTGAGCCGGTGATCACCTTAATAATAAAGGGCTCTCCTGAACTCTGCTCGGTCTCTCCCGTCTCTGATTTGTCCCGCAACA
|
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_LTRb | ZNF768 | 141 | 149 | - | 15.25 | GCCTCTCTG |
| HERV1_LTRb | KAN2 | 107 | 116 | - | 14.94 | AATATTCTCT |
| HERV1_LTRb | D | 314 | 324 | + | 14.54 | GCCTTTGTTCT |
| HERV1_LTRb | Sox11 | 316 | 323 | - | 14.51 | GAACAAAG |
| HERV1_LTRb | Sox11 | 393 | 400 | - | 14.51 | GAACAAAG |
| HERV1_LTRb | ZHD6 | 300 | 311 | + | 14.39 | AAGAGTAATTAA |
| HERV1_LTRb | Trl | 104 | 112 | + | 14.34 | AAGAGAGAA |
| HERV1_LTRb | E2F8 | 358 | 366 | + | 14.31 | CTCCCGCCA |
| HERV1_LTRb | Sox6 | 315 | 324 | + | 14.21 | CCTTTGTTCT |
| HERV1_LTRb | ZNF768 | 488 | 496 | + | 14.20 | CCGTCTCTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
