LTR64
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000563 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Primates |
| Length | 528 |
| Kimura value | 16.54 |
| Tau index | 1.0000 |
| Description | LTR64 (Long Terminal Repeat) for ERV1 endogenous retrovirus |
| Comment | 4 bp TSDs. |
| Sequence |
TGTGAGACAAAGTAGCAAACGTAAGAAGCCATGTTTGCTCATTTCTGCTTGCCAGCATAATTTCACAAAGCCCCTGACTCTGTGACGACGTGCAGCTCTCCGGAAAGATGCTTTGAAGACAAAACAGGATAGAGCACACGGCCCCCCACGTCTCTTGCCTGAGTCACTATATTCCTTAAAAGATAAATGACCCTAGTCCTTGCCTTTTCCTACACATAAGATAACGTCTGACGGGGTTAGTGATTATGCCTCTGTAATCTATAACCAGATGTACTCTTACACCCAAACCTTGATGTGATTCTGCTTTAATGTAACTTCTGAGCAAGTTTGATGTGATTTTGCACGTACTGAACCTCCACCACCTGTATATAAGCNGTGGGCTGAAACACTGCGCCGGAGCAGTCTGACAGAACCTCTCTGAAGGGCTGCTCCCGGGCTGTAGGCCTCGGTCTATAGTCCTCAGTAAGACTTCTGAATAAAACTAACTTTAATTCTTTAAAAGCTTGATTTTTTTTTCTTTAGTCGACA
|
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 |
|---|---|---|---|---|---|---|
| LTR64 | GAF1 | 110 | 124 | + | 6.63 | GCTTTGAAGACAAAA |
| LTR64 | GLIS1 | 139 | 153 | + | 6.42 | CGGCCCCCCACGTCT |
| LTR64 | ZNF382 | 231 | 254 | - | 6.03 | CAGAGGCATAATCACTAACCCCGT |
| LTR64 | REST | 443 | 462 | - | 5.73 | TGAGGACTATAGACCGAGGC |
| LTR64 | REST | 92 | 111 | + | 4.69 | GCAGCTCTCCGGAAAGATGC |
| LTR64 | THI2 | 14 | 28 | + | 1.30 | AGCAAACGTAAGAAG |
| LTR64 | NR1H2::RXRA | 186 | 202 | - | -5.46 | CAAGGACTAGGGTCATT |
| LTR64 | ZSCAN16 | 107 | 124 | - | -23.79 | TTTTGTCTTCAAAGCATC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
