MLT1O
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001026 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Theria_mammals |
| Length | 542 |
| Kimura value | 31.69 |
| Tau index | 0.9071 |
| Description | MLT1O Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT10 has 5 bp TSDs. There are ~1000 about copies in the reconstructed Laurasiatherian genome (with substitution levels of ~35%). Note that a full-length ERV-MaLR (Mammalian apparent LTR retrotransposon) element is derived from an ERV (Endogenous Retrovirus), but only contains the Gag gene (that is, no Pol or Env). |
| Sequence |
TGTAGTGGACACCTTTTGGGGTGTCTGCCCAGCCCCCCTTCTCTGGGAACCGCCCCCCCACCCACAGGGGTGGGCCCCCGGCAGCCATGTTTGTACTACGTGACCCCGCCCCCCTGGCCACAGCTGATTGGACCAGGGGTGGACACCTGACCCAAGCTGGGCCAATCAGATTCTCTCTCCCGGGAATTTGGAATTGGGACTNAGAGATNCTAGTCAGTCTCTGCTGGTCGCTTGAACTGGGGANATGTAAACTCGGGAGCTGTGGGGCGGCCATNTTCCGCCATGTGNACGGAGAAGCAGAGAAAGCCGGTCTGCAGAGAGAGGAGAATGAAGCAGACGCGCAGAGAGAAGCAGAGACGAGAGACCGGGTGGCCTCAGAGACAGAGAAAGATGGAGCCGATTCTCTCCTGAGGCCCGGCTGCATTCCTGCCCTTGGGTTCCGTGAGACACCCCTGTATCCTTATAATAAATTCCCCTTTTTTGCTTAAGCTAGCTCGAGTGGGTTTCTGTTACTTGCAACCAAAAGAGCCTTGACTAAGACA
|
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 |
|---|---|---|---|---|---|---|
| MLT1O | ARALYDRAFT_493022 | 70 | 77 | - | 15.63 | GGGCCCAC |
| MLT1O | btd | 105 | 113 | - | 15.62 | GGGGGCGGG |
| MLT1O | EGR4 | 50 | 60 | + | 15.55 | CCGCCCCCCCA |
| MLT1O | AIL6 | 431 | 445 | + | 15.53 | CCTTGGGTTCCGTGA |
| MLT1O | KLF1 | 104 | 111 | - | 15.53 | GGGCGGGG |
| MLT1O | KLF4 | 56 | 63 | + | 15.48 | CCCCACCC |
| MLT1O | KLF11 | 104 | 113 | + | 15.46 | CCCCGCCCCC |
| MLT1O | ARALYDRAFT_495258 | 70 | 77 | - | 15.43 | GGGCCCAC |
| MLT1O | ARALYDRAFT_484486 | 70 | 77 | - | 15.43 | GGGCCCAC |
| MLT1O | PATZ1 | 103 | 113 | - | 15.35 | GGGGGCGGGGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
