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 | JUND | 107 | 117 | + | 17.06 | GATGAGGTCAT |
| MLT1A | ATF2 | 108 | 117 | + | 16.97 | ATGAGGTCAT |
| MLT1A | KLF5 | 119 | 128 | - | 15.96 | GCCCCACCCT |
| MLT1A | JUN | 108 | 117 | + | 15.84 | ATGAGGTCAT |
| MLT1A | PK19717.1 | 122 | 130 | - | 15.77 | GGGCCCCAC |
| MLT1A | Zfp809 | 281 | 289 | + | 15.73 | TTCCCAGCC |
| MLT1A | TCP7 | 122 | 132 | + | 15.65 | GTGGGGCCCTC |
| MLT1A | cassava45561.m1 | 122 | 130 | - | 15.61 | GGGCCCCAC |
| MLT1A | KLF4 | 120 | 127 | - | 15.48 | CCCCACCC |
| MLT1A | ARALYDRAFT_495258 | 122 | 129 | - | 15.43 | GGCCCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
