LTR7B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000587 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 464 |
| Kimura value | 4.82 |
| Tau index | 0.9462 |
| Description | Long terminal repeat of an HERVH endogenous retrovirus |
| Comment | LTR of an HERVH element active 15 to 40 MYA. About half the copies predate our speciation from Old World monkeys, about 10% is unique to the great ape genomes. A 1 bp sequence starting around pos 180 appears with 1 or 2 copies. The version with 1 copy was named LTR7B1 in the reference. |
| Sequence |
TGTCAGGCCTCTGAGCCCAAGCTAAGCCATCATATCCCCTGTGACCTGCACGTATACATCCAGATGGCCTGAAGCAACTGAAGATCCACAAAAGAAGTGAAAATAGCCTTAACTGATGACATTCCACCATTGTGATTTGTTTCTGCCCCACCCTAACTGATCAATGTACTTTGTAATCTCCCCCACCCTTAAGAAGGTTCTTTGTAATCTCCCCCACCCTTAAGAAGGTTCTTTGTAATTCTCCCCACCCTTGAGAATGTACTTTGTGAGATCCACCCCCTGCCCGCAAAACATTGCTCCTAACTCCACCGCCTATCCCAAAACCTATAAGAACTAATGATAATCCCACCACCCTTTGCTGACTCTCTTTTCGGACTCAGCCCGCCTGCACCCAGGTGAAATAAACAGCCTTGTTGCTCACACAAAGCCTGTTTGGTGGTCTCTTCACACGGACGCGTGAGACA
|
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 |
|---|---|---|---|---|---|---|
| LTR7B | KLF1 | 146 | 153 | - | 14.64 | GGGTGGGG |
| LTR7B | KLF1 | 181 | 188 | - | 14.64 | GGGTGGGG |
| LTR7B | KLF1 | 212 | 219 | - | 14.64 | GGGTGGGG |
| LTR7B | KLF1 | 243 | 250 | - | 14.64 | GGGTGGGG |
| LTR7B | ERF012 | 306 | 313 | + | 14.52 | CCACCGCC |
| LTR7B | TBX19 | 445 | 461 | + | 14.45 | TCACACGGACGCGTGAG |
| LTR7B | TEAD4 | 119 | 126 | + | 14.45 | ACATTCCA |
| LTR7B | INSM1 | 274 | 285 | - | 14.15 | GGGCAGGGGGTG |
| LTR7B | KLF5 | 242 | 251 | + | 14.12 | TCCCCACCCT |
| LTR7B | NAC045 | 71 | 78 | + | 14.10 | GAAGCAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
