HERV1_LTRb
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000165 |
|---|---|
| TE superfamily | ERV1 |
| TE class | 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 | Ikzf3 | 339 | 347 | - | 14.00 | CAGGAAGCG |
| HERV1_LTRb | AT2G40260 | 107 | 116 | - | 13.92 | AATATTCTCT |
| HERV1_LTRb | nhr-142 | 223 | 230 | + | 13.66 | AGTCACAA |
| HERV1_LTRb | AT2G38300 | 107 | 116 | - | 13.52 | AATATTCTCT |
| HERV1_LTRb | Zfx | 93 | 102 | - | 13.48 | ACCCAGGCCT |
| HERV1_LTRb | UGA3 | 359 | 365 | - | 13.34 | GGCGGGA |
| HERV1_LTRb | ZNF708 | 181 | 189 | - | 13.30 | GCCGTGCCT |
| HERV1_LTRb | SOX12 | 394 | 403 | - | 13.30 | CCCGAACAAA |
| HERV1_LTRb | Stat4 | 53 | 62 | - | 13.28 | TTCAAGGAAA |
| HERV1_LTRb | ZNF24 | 9 | 21 | - | 13.27 | AATTCATTAATTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
