LTR16D2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000424 |
|---|---|
| TE superfamily | ERV3 |
| TE class | LTR |
| Species | Eutheria |
| Length | 572 |
| Kimura value | 29.63 |
| Tau index | 0.0000 |
| Description | LTR16D2 (Long Terminal Repeat) for ERVL endogenous retrovirus |
| Comment | - |
| Sequence |
TGTATTGGACACAAACCTTGTGCGCCTTCTCAGATTCCCTCGACCGCCTCCTTCTTTCTCTCTCTTGGCCGGCGCCCCACCCGCGCCGGGTCGCCCCTCCACTTTCGGACTTGGATGAAACGCCACACCGCGGGGCATGGGATCTGGCTTCCTGAGCGGCCGCCGAAGGGGCCGGATGACGCAACCCGGAAGTGCAGGGGAGTTAGCTCCCCGTGGGGTGAACCTTGACCAATGGGAAACGGGAGACGGGAGGGAGCCGGGCAGATAAATTCCCCCTCCTTTCTCTCTTCCGTGGACTACTCCGAGGTGCGGTTCCTCCTTGCAACCCTTCCGGAGAAGTCCCGCGTGCCGAGCGAACACGCCTGCTGAGCGACCTGCTGTGTCTCTTCGCGGCTCGTTGTGAAGCGGTAGCCAGCGCGGTAACGCATCGCATCGCATTGCTTCGCATCTTTCCTTGCCTCACTTCCCTTTTTCCTCACCCTCGCCGCCCTGGGCTTGCACCTCCCAAATAAAGTGTTAGCACCTTAATCCTTGCCTCAGGCTCTGCTTTCTAGAGGACCCGGGCTAAGACA
|
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 |
|---|---|---|---|---|---|---|
| LTR16D2 | EWSR1-FLI1 | 450 | 467 | - | -14.80 | GGAAGTGAGGCAAGGAAA |
| LTR16D2 | EWSR1-FLI1 | 244 | 261 | + | -14.89 | AGACGGGAGGGAGCCGGG |
| LTR16D2 | EWSR1-FLI1 | 454 | 471 | - | -15.63 | AAAGGGAAGTGAGGCAAG |
| LTR16D2 | EWSR1-FLI1 | 436 | 453 | - | -15.97 | GAAAGATGCGAAGCAATG |
| LTR16D2 | BCL6B | 545 | 561 | + | -18.27 | TGCTTTCTAGAGGACCC |
| LTR16D2 | BPC5 | 36 | 65 | - | -30.27 | AGAGAGAGAAAGAAGGAGGCGGTCGAGGGA |
| LTR16D2 | BPC5 | 40 | 69 | - | -41.04 | GCCAAGAGAGAGAAAGAAGGAGGCGGTCGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
