LTR86C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000610 |
|---|---|
| TE superfamily | ERV3 |
| TE class | LTR |
| Species | Eutheria |
| Length | 621 |
| Kimura value | 33.83 |
| Tau index | 1.0000 |
| Description | LTR86C (Long Terminal Repeat) for ERVL endogenous retrovirus |
| Comment | 5 bp TSDs, with a bias for NNNNC. |
| Sequence |
TGCAGGATAGGCCCTATAGCTGGTCTAAGGGCCTGTTAGCATGACTCCCAGAGACGTCTGGGTAACTGACCCTTGTTCTAGTTCCGCAGCNCTGAGTTCAGGAATGTACTTGGACCAGGCTGTGTTAGCCTGGGGAGGCTGAGGGTGATAAATGAGGACTGTGTTCATGCCTGAGTGTACTGTACTGTACTGTGCTCTGCAGTCATATTGTATATTGTATAACTCCGAGATTGATGAGGTGCACCTGGCCCAGATGAGGTGGTCCCCGGCACATATCCAGACTAGCCTACGTGCAGAACTGCTCCAGCCTTATGTATATAAGGCTGGGCTTGGAGGGGGGCAGTTGAGCTTCCAGAAGGTCTGATGTGACCCTCACTCACTCAGACGTTATCATCCGCAACTGTGCGCCCCCTGGTGAGGATCTTGGGGTCCGGAAGCTTGCACCTCCGTCTGTCCTGGAGAATGTTGCTGATCTCTCTGCCGTGTATCCTGACTGCGCTGACTTCCTTCTGTATCCTTTAGATAAGTAAACCTTGTTTGATTTACCCAAGTGGTGTCTGTGTCTGGTCTTTCCGTCAATCTGAACCTACTATTGACATTTGTCAATACAGTGGTCGTGCA
|
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 |
|---|---|---|---|---|---|---|
| LTR86C | ZNF460 | 130 | 145 | - | 22.44 | CCCTCAGCCTCCCCAG |
| LTR86C | ARALYDRAFT_496250 | 259 | 266 | - | 16.55 | GGGACCAC |
| LTR86C | ARALYDRAFT_897773 | 259 | 267 | - | 16.39 | GGGGACCAC |
| LTR86C | CTCF | 405 | 419 | - | 16.34 | CTCACCAGGGGGCGC |
| LTR86C | TCP3 | 259 | 266 | - | 16.23 | GGGACCAC |
| LTR86C | TCP24 | 259 | 266 | - | 16.21 | GGGACCAC |
| LTR86C | TCP5 | 259 | 266 | - | 16.15 | GGGACCAC |
| LTR86C | TCP4 | 259 | 266 | - | 15.98 | GGGACCAC |
| LTR86C | PK10344.1 | 259 | 266 | - | 15.74 | GGGACCAC |
| LTR86C | CTCFL | 407 | 414 | - | 15.72 | CAGGGGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
