HERV1_LTRa
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000164 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 521 |
| Kimura value | 4.73 |
| Tau index | 0.0000 |
| Description | LTRa (Long Terminal Repeat) of endogenous retrovirus HERV1 |
| Comment | - |
| Sequence |
TGAAGAAGGAATTCATGAATTTTACAAGTATAATCAAAGACAACCAAGAAATTTTTACTTTTTCCTTCAAAAGCTAAGTGTAGTGTAGCCCCCACCCGTAGTCTAAGTTAGAGAAGAATACTAACTGCCTGTTTTTCCTTCTGTGCTCAGCGAGCCTTATCTGTACTCGCCAGTTTCACATTCCTTGAGGCTCAGCGAGTTCCTGCTTCACCTCCCTAGCGCAGCTGCAAAGTTACAAGGTTGATACGCGNNCGNCGCAGAAACATGGTTTCCCAGGGATGTGGAACATGTAGTATAGATAAATGTAAAAGACTGATCAACTGCCTTTGTTCTCGCTTCTGTAAGTACGCTTCCTGCATCACGTAGCTCCCGGCCACTGACTGCTTAAAAGGTGGCTGCTTTCTTTGTCCGGGGCTCAGACTTTCCTGGACGCTAGTCCTACTGAGCCAGGTGATCACCTTTTAATAAAGACCTTTCCTGAACTCTGTTCGGTCTCTCCCATCTCTGATTGTCCCGCAACA
|
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_LTRa | Sox17 | 324 | 333 | - | 13.15 | AGAACAAAGG |
| HERV1_LTRa | srp | 155 | 162 | - | 13.11 | AGATAAGG |
| HERV1_LTRa | Erg | 348 | 357 | - | 13.11 | GCAGGAAGCG |
| HERV1_LTRa | ZNF454 | 365 | 381 | + | 13.07 | AGCTCCCGGCCACTGAC |
| HERV1_LTRa | TEAD2 | 178 | 184 | + | 13.03 | ACATTCC |
| HERV1_LTRa | NAC053 | 45 | 51 | + | 13.01 | CAAGAAA |
| HERV1_LTRa | DOF5.8 | 45 | 63 | + | 12.97 | CAAGAAATTTTTACTTTTT |
| HERV1_LTRa | NAC078 | 45 | 51 | + | 12.96 | CAAGAAA |
| HERV1_LTRa | ZNF136 | 39 | 53 | - | 12.85 | AATTTCTTGGTTGTC |
| HERV1_LTRa | GRF4 | 221 | 228 | + | 12.83 | GCAGCTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
