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 | ETV6 | 325 | 333 | - | 13.06 | GCGGAAGCG |
| HERV1_LTRb | NAC025 | 351 | 358 | + | 13.03 | CACGTAAC |
| HERV1_LTRb | TEAD2 | 171 | 177 | + | 13.03 | ACATTCC |
| HERV1_LTRb | Sox102F | 394 | 405 | + | 12.89 | TTTGTTCGGGGC |
| HERV1_LTRb | ELK4 | 325 | 333 | + | 12.84 | CGCTTCCGC |
| HERV1_LTRb | NAC047 | 350 | 359 | + | 12.77 | GCACGTAACT |
| HERV1_LTRb | ASH1 | 83 | 92 | - | 12.74 | CCGGGTTGGG |
| HERV1_LTRb | ZHD5 | 304 | 311 | + | 12.67 | GTAATTAA |
| HERV1_LTRb | NAC018 | 350 | 359 | + | 12.66 | GCACGTAACT |
| HERV1_LTRb | GABPA | 339 | 348 | + | 12.64 | CGCTTCCTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
