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 | DREB2F | 303 | 313 | + | 15.68 | ACTCCACCGCC |
| LTR7B | KLF4 | 146 | 153 | + | 15.48 | CCCCACCC |
| LTR7B | KLF4 | 181 | 188 | + | 15.48 | CCCCACCC |
| LTR7B | KLF4 | 212 | 219 | + | 15.48 | CCCCACCC |
| LTR7B | KLF4 | 243 | 250 | + | 15.48 | CCCCACCC |
| LTR7B | DREB2G | 306 | 319 | - | 15.47 | GGGATAGGCGGTGG |
| LTR7B | PK08602.1 | 306 | 313 | + | 15.41 | CCACCGCC |
| LTR7B | Dmrt1 | 167 | 175 | - | 14.85 | TACAAAGTA |
| LTR7B | ERF057 | 300 | 313 | + | 14.69 | CTAACTCCACCGCC |
| LTR7B | MYB107 | 431 | 438 | - | 14.64 | CACCAAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
