MLT1K
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001022 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Theria_mammals |
| Length | 595 |
| Kimura value | 32.86 |
| Tau index | 0.7908 |
| Description | MLT1K Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1K has 5 bp TSDs. Reconstruction expanded upon, and replaces MER98. 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 |
TGTAGTGGACATCTGTTGTTTTTGCCTGCCCAGCATCCATTCCCCCTTCTTCTGGTAACAGCACCCCGATTTTCCTTTGGGGAACCACCCCTCCCCCACTCTCAGTCCATGTGGTTCGGGTGGGGCTGACCCCACCCCTCGGCTCCAGGGGTGGGCACGTGACCCAGGCCTGGCCAATCAGAGCATTCCATCCCCCTGGCCACAGTGATTGGTTCAGGGATGGGCACGTGACCCAAGCCGGGCCAATGAGAGTCAGCCCTGGGACTTTTGCTGGAACTATTGGGAAAGAGANGCTCTCTTTCCGCTGGGGTTGCTAAGCTGGNAGGATGTAAGCCTGGAGCTGCTGGCGGCCATCTTGCCACCACGTGGGGAGAGCCTGCCTGAGAATGAAGCCAACACAGAGGAAAGCAGAGCCGAGAGATGGAGAGAGACAGANTCCTGATGACATCGTTTGAGCNCCTGGATCCAGCCGTGCCTGAAGCCAGANCTACCCCTGGACTTTTCAGTTACGTGAGCCAATAAATTCCCTTTTTTGCTTAAGCCAGTTTGAGTTGGGTTTCTGTCACTTGCAACCGAAAGAGTCCTGACTAATACA
|
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 |
|---|---|---|---|---|---|---|
| MLT1K | ZNF281 | 88 | 97 | - | 20.07 | GGGGGAGGGG |
| MLT1K | ZNF582 | 559 | 577 | + | 19.66 | TCTGTCACTTGCAACCGAA |
| MLT1K | ZNF148 | 88 | 97 | + | 18.97 | CCCCTCCCCC |
| MLT1K | ZFP42 | 346 | 358 | - | 18.57 | CAAGATGGCCGCC |
| MLT1K | Wt1 | 90 | 99 | + | 18.54 | CCTCCCCCAC |
| MLT1K | Rel | 79 | 89 | - | 18.03 | GGTGGTTCCCC |
| MLT1K | eor-1 | 417 | 429 | + | 16.95 | AGAGATGGAGAGA |
| MLT1K | BHLHE41 | 154 | 163 | + | 16.88 | GGCACGTGAC |
| MLT1K | BHLHE41 | 223 | 232 | + | 16.88 | GGCACGTGAC |
| MLT1K | CG7928 | 144 | 155 | - | 16.39 | CCCACCCCTGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
