MLT1H1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001015 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Eutheria |
| Length | 555 |
| Kimura value | 26.43 |
| Tau index | 0.8608 |
| Description | MLT1H1 Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1H1 has 5 bp TSDs, and is intermediate between MLT1G2 and MLT1H. 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 |
TGTGGTAGATTAAAGATGGCCGCAAATTCTTTGACACTCCTCCCATCGAGAGGTGGGGTCTATNTCCCCTCCCCTTGAATCTGGGCTGGCCTTAGTGACTGCTTTGACCAATAGAATGCGGCGGAAGTGACGCTGTGCGACTTCCGAGGCTAGGTCNTAAGAAGCCTTGCAGCTTCCGCCTNGGTCTCTTGGAACGCTCGCTCTGGGAGCCCTGAGCCGCCATGTAAGAAGTCCGACTACCCTGAGACCGCCATGCTGGAGAGGCCACGTGNAGGCGCTCTGGTCGACAGTCCCAGCTGAGCCCAGCCTTCCAGCCATCCCCGCCAAGGCGCCAGACATGTGAGTGAAGCCGTCTTGGACCCTCCAGACCAGCCCANCCGCCAGCTGAATACCACCGAGTGACCTCAGTCGACGCCACGTGGAGCAGAAGAACCGCCCAGCTGAGCCCTGCCCGAATTCCTGACCCACAAAATCGTGAGANATAATAAAATGGTTGTTGTTTTAAGCCACTAAGTTTTGGGGTAGTTTGTTACGCAGCAATAGATAACCGGAACA
|
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 |
|---|---|---|---|---|---|---|
| MLT1H1 | BZIP43 | 219 | 230 | + | 4.15 | GCCATGTAAGAA |
| MLT1H1 | TFAP4::FLI1 | 438 | 451 | - | 4.02 | GCAGGGCTCAGCTG |
| MLT1H1 | BEH2 | 414 | 423 | + | 3.86 | GCCACGTGGA |
| MLT1H1 | TFAP4::FLI1 | 382 | 395 | - | 3.19 | GTGGTATTCAGCTG |
| MLT1H1 | RREB1 | 514 | 532 | - | 2.79 | TAACAAACTACCCCAAAAC |
| MLT1H1 | Rarg | 400 | 416 | - | 0.65 | GGCGTCGACTGAGGTCA |
| MLT1H1 | EWSR1-FLI1 | 303 | 320 | - | -11.32 | GGATGGCTGGAAGGCTGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
