MER115
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000780 |
|---|---|
| TE superfamily | Tip100 |
| TE class | DNA |
| Species | Eutheria |
| Length | 693 |
| Kimura value | 26.84 |
| Tau index | 0.7804 |
| Description | hAT-Charlie DNA transposon, MER115 subfamily (non-autonomous) |
| Comment | MER115 has imperfect 14 bp TIRs, and 8 bp TSDs. Its terminal regions (roughly pos. 1-67 and 535-693) derive from Zaphod, on which it probably depended on for transposition. Note that MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons. |
| Sequence |
CAGTACCGCCCTTAGACCCGGGCAAGAGGGGCCCCTGCCCTGGGCCCCGCGCTTTAGAGGGCCCCGCTCTGGCCCTCCTCCGGCCGCGCCCCTCCCCACGGGGCGAGGAGTCCGCGGGGCCAAGGGGACGTGCCCACCCGGAGCCCGCGCCCCCCCTTCTAGACCACGCTCCGGGTACCCGGGACCCCGGAATTCCCTGCCCAAACGGCCCCGAGCCCGCTTCCAGGGCCTGCGCGGGCCTCTTCCCCGGGTCCGTCCTCCCGAGGGCGGACCGCGCCGCCGGTGTGCGCACCCCTAGGCCCGAGGGGTGGCCAAGGGGCGGCTGTTTGCGGGGGGTGTGGACGGAGCTTGGACGTGCGGGCTGGGGTGTCCACACGCGTGCGCGCGAGGCCCCTCGCGGTGCGGGACGGAGCCGGGGGTGGGAAGAGAAGGGGGGCGGGCCGCGGGCCGGGGGCCGGCTCTCCCCGCGCCGCCACGTTCCGGCGCGGAACTCCGAGGAGTCCGAGAATTCTAAATTCGAACCTGGCCTTCCAGGTCGTTATGAAGGTATATTTGTCAAGGTAGGAGGATAGAACATATTTTATTTAACAGTTTGTTAGCTTGATTTATAACTTTTAAATATTTAGACATATGGTATGTGGGCCTCCATTTGTACTCTTGCCCCGGGCCCCGCAAATGTTAGGGGCGGGCCTG
|
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 |
|---|---|---|---|---|---|---|
| MER115 | RXRB | 7 | 20 | - | -0.73 | CGGGTCTAAGGGCG |
| MER115 | Rarb | 651 | 666 | - | -2.60 | CCGGGGCAAGAGTACA |
| MER115 | GLIS1 | 388 | 402 | + | -3.84 | AGGCCCCTCGCGGTG |
| MER115 | GLIS1 | 325 | 339 | - | -6.47 | ACACCCCCCGCAAAC |
| MER115 | EWSR1-FLI1 | 423 | 440 | + | -10.95 | GAAGAGAAGGGGGGCGGG |
| MER115 | RARA | 116 | 133 | + | -11.38 | GGGGCCAAGGGGACGTGC |
| MER115 | DAL81 | 408 | 426 | + | -51.72 | CGGAGCCGGGGGTGGGAAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
