MLT1A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001126 |
|---|---|
| TE superfamily | MaLR |
| TE class | LTR |
| Species | Boreoeutheria |
| Length | 374 |
| Kimura value | 20.59 |
| Tau index | 0.9038 |
| Description | MLT1A Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MLT1A (Mammalian LTR Transposon) has 5 bp TSDs. This is an intermediate subfamily between MSTD and MLT1C. 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 |
TGCTATGGACTGAATGTTTGTGTCCCCCCAAAATTCATATGTTGAAGCCCTAACCCCCAATGTGATGGTATTTGGAGGTGGGGCCTTTGGGAGGTAATTAGGNTTAGATGAGGTCATGAGGGTGGGGCCCTCATGATGGGATTAGTGCCCTTATAAAAGAGACACCAGAGAGCTCTCTTNCCCCTTCCGCCATGTGAGGACACAGCGAGAAGGCGCCGTCTGCAAGCCAGGAAGAGAGCCCTCACCAGAAACCGAATCTGCCGGCACCTTGATCTTGGACTTCCCAGCCTCCAGAACTGTGAGAAATAAATTTCTGTTGTTTAAGCCACCCAGTCTATGGTATTTTGTTATGGCAGCCCGAGCNGACTAAGACA
|
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 |
|---|---|---|---|---|---|---|
| MLT1A | LjSGA_053525.1 | 122 | 129 | - | 14.06 | GGCCCCAC |
| MLT1A | LjSGA_053525.1 | 78 | 85 | - | 14.06 | GGCCCCAC |
| MLT1A | ERF6 | 259 | 265 | + | 13.72 | TGCCGGC |
| MLT1A | ERF6 | 260 | 266 | - | 13.72 | TGCCGGC |
| MLT1A | HOXD3 | 94 | 101 | - | 13.70 | CTAATTAC |
| MLT1A | PK24580.1 | 259 | 265 | - | 13.69 | GCCGGCA |
| MLT1A | PK24580.1 | 260 | 266 | + | 13.69 | GCCGGCA |
| MLT1A | PATZ1 | 118 | 128 | + | 13.62 | GAGGGTGGGGC |
| MLT1A | TCP21 | 122 | 132 | + | 13.56 | GTGGGGCCCTC |
| MLT1A | DUX4 | 134 | 144 | - | 13.55 | TAATCCCATCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
