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 | GLI3 | 87 | 101 | + | 0.96 | AGCCCCCACCCGTAG |
| HERV1_LTRa | IRF8 | 172 | 184 | - | -0.42 | GGAATGTGAAACT |
| HERV1_LTRa | Rarb | 479 | 495 | - | -1.74 | AGACCGAACAGAGTTCA |
| HERV1_LTRa | TCP14 | 85 | 102 | - | -2.89 | ACTACGGGTGGGGGCTAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
