MER45C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000787 |
|---|---|
| TE superfamily | Tip100 |
| TE class | DNA |
| Species | Eutheria |
| Length | 953 |
| Kimura value | 21.12 |
| Tau index | 0.8979 |
| Description | hAT-Tip100 DNA transposon, MER45C subfamily (non-autonomous) |
| Comment | Has 15 bp TIR, 8 bp TSD. Initially reported in the opposite orientation. 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 |
CAGGGCCGGCTTCATGGGCGTGCGACCAGTGCAGTCGCACAGGGCCCCGCGCTCAGAAGGGCCCCGCGCTTGGGGTTTAATGCTCTGCGGTCGCCGTCTTGAAATTCTTAATAATTTTATCTTTGAATTTGTGTTTTGTAAGTGAAGTCCGATGGGACAATGGAGCATGCGCCGGGGGCTTGGAGCCTCGGCTCACGCGCGGTCCCGCCTCCCGCCGCCTCCCCGCCTCCCCGGGACGGGTTCTCGGCCGCCCGCTCCCCTGCCCCCTGGTGCCCCGGGCCCCGCCTGCCTTCTCCCTCCNCGCCCCCGCCCAGCGACCGCTGCCGCCCTCCGCCCCCGGCGGGGGCCTGGGCGCGGGCGCGGGGAGGGTCGGGGTCGGGCGCACGCGCCCCGCGGCATCTCGGGGCGGGGCATGGCGGCGGCCGTCCCCGCCCCGGGCTGGCAGCGCCACGGCGCGTTCGGCGGGCGACTCGGCGGGGGCGAGCCTCTCGCCCACCCCCGATCCAGGTACCGAGCGCGTCCCGGCGCGGAGGTTGCAATACCCTTGGGGGTCGCCCGTCCGCCGTGGGTTGGGGCGGCGGGCCCGTGGGAAGGGGAGATGCCTGGCTCGACTTCCCCGCCCCCGGCCGGGGCACGGCGCGTCGGTCCGGCGGCTGGCGGGAGGGGGAACCCGGCAGCCGGTGGGCCCATGCGTGCGCACCCCCGAGTCGCAGGGCGGGGCCCCGGGCGCCTGTGAGGGTCTGCACTCGCCCCGCGAGTATCCCCGTGCCCGAGGGAGCGCGACATTAAATAGCAAATAAAAAACACCATGACAGGTCGAGAGAGAGACCGCGGAAGAAAGGAAAAAGCTTTATATTTTAGTACCTTTAACGGCACTTTTTTCCTGCTTTTTGAACAAGGGGCCCCGCATTTTCATTTTGCACTGGGCCCCGCAAATTATGTAGCCGGCCCTG
|
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 |
|---|---|---|---|---|---|---|
| MER45C | PRDM9 | 212 | 231 | - | 17.79 | GGGAGGCGGGGAGGCGGCGG |
| MER45C | CTCF | 260 | 274 | - | 17.67 | GGCACCAGGGGGCAG |
| MER45C | EREB29 | 573 | 582 | - | 17.61 | CCCGCCGCCC |
| MER45C | SP2 | 403 | 411 | + | 17.56 | GGGGCGGGG |
| MER45C | SP2 | 427 | 435 | - | 17.56 | GGGGCGGGG |
| MER45C | SP2 | 615 | 623 | - | 17.56 | GGGGCGGGG |
| MER45C | SP4 | 403 | 411 | + | 17.54 | GGGGCGGGG |
| MER45C | SP4 | 427 | 435 | - | 17.54 | GGGGCGGGG |
| MER45C | SP4 | 615 | 623 | - | 17.54 | GGGGCGGGG |
| MER45C | EREB138 | 413 | 422 | - | 17.53 | CCGCCGCCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
