LTR36
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000498 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 611 |
| Kimura value | 14.72 |
| Tau index | 0.9931 |
| Description | LTR36 (Long Terminal Repeat) for ERV1 endogenous retrovirus |
| Comment | LTR36 is a putative LTR related to the MER4-int group. Specific to primates. |
| Sequence |
TGTAACCGAGTACCCCCATTTTTCTAAGAGAAAGAGAATGAGTTTTATTATTTTTTTTTCTCTTTTCTCCTTTTCCCCCTGTTCCCCACTTCCTACTTAGCCCTTTAGAAATGCAATTATAACCTTTTACCTCCCCTTCACCAGACACTCCCTACAGGGCAAGTTCATCTAACTATGTGCTTAGAAGCTCCAGAGCGGAACTCTCNCCCACCAGGAGGTTGCCTCGAGAGACAACAGTCGATTTACAACCCAAAGTATGCCCGCTACGAAACTCTCTCCCACCTGGAGAGTTTCGGCCACCTTTACAACCTAGTTCTGCCCACGAAGGCGCCAGCGGTCACCAGCTCGACCGCCCGGTAGATAAGGCACCGAAGCNAGTACGCGGACCCCCACCTGCTCGCTTCCTCCCCTGCGTGCCATTCATGCCAAGCCCCCTTTTAAAAGCGCCCGCTTTCTGCTCCAAAAGCGAAGCGGTACCCTTAAGGCAGGAAGCCTGTACTTCTTCCCCTAAGCTAGCTTTGGAATAAAAAGTCACTTTCTTTATACCAGACCTCGCTCTTGTTAATTGGACTCTGCAAGCGGCGAGCGACTGAACCTGCGTTTCGGTTACA
|
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 |
|---|---|---|---|---|---|---|
| LTR36 | ZNF263 | 403 | 409 | - | 13.83 | GGGAGGA |
| LTR36 | Hand1 | 545 | 553 | + | 13.82 | ACCAGACCT |
| LTR36 | wor | 391 | 397 | + | 13.74 | CACCTGC |
| LTR36 | DOF3.6 | 50 | 70 | + | 13.70 | ATTTTTTTTTCTCTTTTCTCC |
| LTR36 | brk | 327 | 334 | - | 13.61 | CTGGCGCC |
| LTR36 | CDF5 | 58 | 78 | + | 13.61 | TTCTCTTTTCTCCTTTTCCCC |
| LTR36 | ZNF384 | 51 | 58 | - | 13.57 | AAAAAAAA |
| LTR36 | ZNF384 | 52 | 59 | - | 13.57 | AAAAAAAA |
| LTR36 | SPIB | 86 | 98 | + | 13.55 | CCACTTCCTACTT |
| LTR36 | TCF3 | 391 | 397 | + | 13.51 | CACCTGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
