LTR8A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000616 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 727 |
| Kimura value | 15.23 |
| Tau index | 1.0000 |
| Description | LTR8A (Long Terminal Repeat) for ERV1 endogenous retrovirus |
| Comment | LTR8A is a subfamily of LTR8. Solo LTRs are flanked by 4 bp TSDs, characteristic of MER4-int group. Internal sequence HERV8-int is also related to the MER4-int group. HUERS-P1 LTR. |
| Sequence |
TGAAACCGCCTTTGCAAAAATTATAACAGTGAGAAAATTATGACAGTGAAAGAGATCTGATCTAACCAACCCCCATCTTGCCTTTAACCTCCAAACTGCCCTTAATCATTCCTGGGCTTGGGCCAAGCTAACTTTGGGAGANATTTAGTTTATAGTTTAAATGATAATAGCCCTTCCCCAAAACTNAACCGCCTTTGTAAAGCTAATGAAAGGCCACCAGGTTAGGAGGATGAGAGGAGCCTGAATTCTGCTAAGGTGTAGACATAAACGATTACCAGCCATTATTCCGGAGGTCACAAGATTTGCAACTTCCCCAATTACTCCTGCAGATAACATCACTATTGTAGAACCTAAGATTGGCCTTTTGAGATGTCTTTTCAGGTTTTTTCGCATTTCTGACACCGATGGCTCCACCTGGACCCGCCAACCGCTCCTGTGGCCCCACCCAGAAGCGACTCAGCACGCANGAGGACCATTTTCCACACCCCTATGATTGCATCCCCAACCAATCAGCAGCAAGCACCCATTNCCTAGCCACCCCCACCCCCTGCCCGCCAAACTATCTTTGAAAAACCCTAGCCTCCGAATTTTCGGGGAGACTGATTTGAGTAATAACTCCGTCTCCCACGTGGCGTGGCCGGCCTCGCGTCAATTAAACTCTTTCTCTACTGCAATGCCGTGGTCTTTGTCTGTGCAGCGGGCAGGAAGAACCCATCGGGCGGTTACA
|
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 |
|---|---|---|---|---|---|---|
| LTR8A | Rarb | 209 | 224 | + | -1.78 | AAAGGCCACCAGGTTA |
| LTR8A | Rarb | 358 | 373 | - | -5.07 | ACATCTCAAAAGGCCA |
| LTR8A | E2F7 | 547 | 560 | + | -6.49 | CCTGCCCGCCAAAC |
| LTR8A | Nr2F6 | 218 | 232 | + | -6.81 | CAGGTTAGGAGGATG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
