MLT1O
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001026 |
|---|---|
| TE superfamily | MaLR |
| TE order | 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 | ZNF582 | 506 | 524 | + | 26.31 | TCTGTTACTTGCAACCAAA |
| MLT1O | eor-1 | 345 | 357 | + | 19.19 | AGAGAAGCAGAGA |
| MLT1O | CG7928 | 132 | 143 | - | 19.11 | TCCACCCCTGGT |
| MLT1O | ZNF281 | 104 | 113 | - | 18.37 | GGGGGCGGGG |
| MLT1O | KLF12 | 104 | 112 | - | 18.01 | GGGGCGGGG |
| MLT1O | KLF10 | 104 | 112 | - | 17.88 | GGGGCGGGG |
| MLT1O | ZFP42 | 80 | 92 | - | 17.82 | AAACATGGCTGCC |
| MLT1O | SP1 | 104 | 112 | - | 17.80 | GGGGCGGGG |
| MLT1O | SP2 | 104 | 112 | - | 17.56 | GGGGCGGGG |
| MLT1O | SP4 | 104 | 112 | - | 17.54 | GGGGCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
