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 | KLF14 | 104 | 112 | - | 17.26 | GGGGCGGGG |
| MLT1O | BAD1 | 70 | 81 | - | 17.21 | CCGGGGGCCCAC |
| MLT1O | eor-1 | 377 | 389 | + | 17.21 | AGAGACAGAGAAA |
| MLT1O | usp | 99 | 107 | - | 17.04 | GGGGTCACG |
| MLT1O | eor-1 | 291 | 303 | + | 16.98 | GGAGAAGCAGAGA |
| MLT1O | Spps | 103 | 113 | + | 16.97 | ACCCCGCCCCC |
| MLT1O | SP3 | 103 | 113 | + | 16.85 | ACCCCGCCCCC |
| MLT1O | KLF16 | 103 | 113 | + | 16.69 | ACCCCGCCCCC |
| MLT1O | ZIM3 | 502 | 512 | - | 16.65 | TAACAGAAACC |
| MLT1O | TCP23 | 70 | 77 | - | 16.36 | GGGCCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
