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 | Klf15 | 535 | 556 | + | 19.89 | CCACCCCCACCCCCTGCCCGCC |
| LTR8A | PATZ1 | 538 | 548 | - | 17.64 | GGGGGTGGGGG |
| LTR8A | Klf6-7-like | 530 | 549 | + | 17.28 | CCTAGCCACCCCCACCCCCT |
| LTR8A | Klf6-7-like | 536 | 555 | + | 17.25 | CACCCCCACCCCCTGCCCGC |
| LTR8A | ZNF281 | 539 | 548 | - | 17.16 | GGGGGTGGGG |
| LTR8A | nfya-1 | 504 | 513 | + | 17.16 | AACCAATCAG |
| LTR8A | BHLH72 | 625 | 633 | - | 16.71 | GCCACGTGG |
| LTR8A | Klf15 | 533 | 554 | + | 16.59 | AGCCACCCCCACCCCCTGCCCG |
| LTR8A | Klf6-7-like | 534 | 553 | + | 16.58 | GCCACCCCCACCCCCTGCCC |
| LTR8A | KLF9 | 534 | 544 | + | 15.97 | GCCACCCCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
