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 | blmp-1 | 56 | 66 | - | 15.87 | AAAAGAGAAAA |
| LTR36 | DOF4.3 | 527 | 539 | - | 15.87 | GAAAGTGACTTTT |
| LTR36 | DOF3.4 | 59 | 75 | + | 15.76 | TCTCTTTTCTCCTTTTC |
| LTR36 | DOF5.8 | 56 | 74 | + | 15.55 | TTTTCTCTTTTCTCCTTTT |
| LTR36 | FERD3L | 328 | 341 | + | 15.32 | GCGCCAGCGGTCAC |
| LTR36 | DOF3.6 | 58 | 78 | + | 15.29 | TTCTCTTTTCTCCTTTTCCCC |
| LTR36 | IRF6 | 289 | 297 | - | 14.85 | GCCGAAACT |
| LTR36 | DOF3.6 | 47 | 67 | + | 14.80 | ATTATTTTTTTTTCTCTTTTC |
| LTR36 | Spi1 | 86 | 98 | - | 14.66 | AAGTAGGAAGTGG |
| LTR36 | ZNF417 | 327 | 333 | + | 14.55 | GGCGCCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
