MSTD
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001045 |
|---|---|
| TE superfamily | MaLR |
| TE order | LTR |
| Species | Euarchontoglires |
| Length | 396 |
| Kimura value | 18.61 |
| Tau index | 0.9910 |
| Description | MSTD Long Terminal Repeat for ERVL-MaLR retrotransposon |
| Comment | MSTD has 5 bp TSDs, and it represents an intermediate subfamily between MSTC and MLT1A LTRs. 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 |
TGCTATGGTTTGAATGTGTCCCCCAAAGTTCATGTGTTGGAAACTTAATCCCCAATGCAACAGTGTTGGGAGGTGGGGCCTNNTAAGAGGTGATTAGGTCATGAGGGCTCCGCCCTCATGAATGGATTAATGCCGTTATCGCGGGAGTGGGTTAGTTATCGCGGGAGTGGGTTCGTTATAAAAGNAAGTTCGGCCCCCTTTTGCTCTCTCTCTCTCGCTCTCTTGCCCTTCCGCCTTCCGCCATGGGATGACGCAGCAAGAAGGCCCTCGCCAGATGCCGGCNCCTCGATCTTGGACTTCCCAGCCTCCAGAACCGTGAGCCAAATAAATTTCTGTTCTTTATAAATTACCCAGTCTGTGGTATTCTGTTATAGCAGCACAAAACGGACTAAGACA
|
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 |
|---|---|---|---|---|---|---|
| MSTD | BPC5 | 188 | 217 | - | -42.79 | CGAGAGAGAGAGAGCAAAAGGGGGCCGAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
