MLT1D
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001004 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Eutheria |
| Length | 505 |
| Kimura value | 21.70 |
| Tau index | 0.8779 |
| Description | MLT1D Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1D (Mammalian LTR Transposon) has 5 bp TSDs, and it an intermediate subfamily between MLT1C and MLT1E2. 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 |
TGTGGTAGGCAGAATAATGGCCCCCCAAAGATGTCCACGTCCTAATCCCCGGAACCTGTGAATATGTTACCTTACATGGCAAAAGGGACTTTGCAGATGTGATTAAGTTAAGGATCTTGAGATGGGGAGATTATCCTGGATTATCCGGGTGGGCCCAATGTAATCACAAGGGTCCTTATAAGAGGGAGGCAGGAGGGTCAGAGTCAGAGAAGGAGATGTGACGACGGAAGCAGAGGTCGGAGTGACGACGTTGCTGGCTTTGAAGATGGAGGAAGGGGCCACGAGCCAAGGAATGCGGGCGGCCTCTAGAAGCTGGAAAAGGCAAGGAAACGGATTCTCCCCTAGAGCCTCCAGAAGGAACGCAGCCCTGCCGACACCTTGATTTTAGCCCAGTGAGACCCATTTCGGACTTCTGACCTCCAGAACTGTAAGATAATAAATTTGTGTTGTTTTAAGCCACTAAGTTTGTGGTAATTTGTTACAGCAGCAATAGGAAACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| MLT1D | VIT_15s0048g01150 | 149 | 156 | - | 15.13 | GGGCCCAC |
| MLT1D | bs | 70 | 79 | + | 15.11 | CCTTACATGG |
| MLT1D | SUT2 | 404 | 413 | - | 15.00 | GAAGTCCGAA |
| MLT1D | ZNF692 | 149 | 156 | - | 15.00 | GGGCCCAC |
| MLT1D | EREB127 | 369 | 376 | + | 14.97 | TGCCGACA |
| MLT1D | ttk | 130 | 138 | - | 14.93 | CAGGATAAT |
| MLT1D | Glyma19g26560.1 | 149 | 156 | - | 14.75 | GGGCCCAC |
| MLT1D | GLYMA19G26560 | 149 | 156 | - | 14.75 | GGGCCCAC |
| MLT1D | DREB1G | 369 | 376 | + | 14.74 | TGCCGACA |
| MLT1D | TCP22 | 149 | 159 | + | 14.71 | GTGGGCCCAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
