LTR7C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000588 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 470 |
| Kimura value | 10.47 |
| Tau index | 0.9171 |
| Description | Long terminal repeat of an HERVH endogenous retrovirus |
| Comment | LTR of an HERVH element active 25-40 MYA. At least 3 distinct subfamilies in this set, but each with very few copies. |
| Sequence |
TGTCAGGCCTCTGAGCCGAAGCTCAGCCATTGTAACCCCTGTGACCTGCACATATACGTCCAGATGGCCTGCAGGAGCCAAGAAGTCTGGAGCAGCCGAAAAACCACAAAAGAAGTGAAACAGCCAGTTCCTGCCTTAACTGATTAACCAACCTTACGACATTCCACCATTGTGACTTGTCCCTGCCCTACCCCAACTGATCAATCGACCTTGTGACATTCTTCTTCTGGACAATGAGTCTTATGATCTCCCCACCATGCACCTTGTGACCCCCTCCTCTGCTGACAATAGATAACCACCTTTNACTGTAACTTTCCACTGCCTACCCAAGTCCTATAAAGCNGCCCCTCCCCTATCTCCCTTCGCTGACTCTCTTTTCGGACTCAGCCCACTTGCACCCAAGTGAATAAACAGCCTTGTTGCTCACACAAAGCCTGTTTGGTGGTCTCTTCACACGGACGCGCTTGACA
|
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 |
|---|---|---|---|---|---|---|
| LTR7C | MYB10 | 436 | 445 | - | 13.90 | CCACCAAACA |
| LTR7C | KLF14 | 345 | 353 | - | 13.88 | GGGGAGGGG |
| LTR7C | nhr-142 | 170 | 177 | - | 13.66 | AGTCACAA |
| LTR7C | nhr-142 | 264 | 271 | - | 13.62 | GGTCACAA |
| LTR7C | MYB13 | 436 | 445 | - | 13.60 | CCACCAAACA |
| LTR7C | KLF16 | 344 | 354 | + | 13.53 | GCCCCTCCCCT |
| LTR7C | Hr39 | 206 | 213 | - | 13.44 | CAAGGTCG |
| LTR7C | Runx1 | 101 | 109 | - | 13.43 | TTGTGGTTT |
| LTR7C | KLF12 | 345 | 353 | - | 13.40 | GGGGAGGGG |
| LTR7C | KLF10 | 345 | 353 | - | 13.37 | GGGGAGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
