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 | EWSR1-FLI1 | 281 | 298 | - | -10.67 | AGGGAGAAGGCAGGCGGG |
| MER45C | EWSR1-FLI1 | 589 | 606 | + | -15.62 | GGAAGGGGAGATGCCTGG |
| MER45C | BPC5 | 810 | 839 | + | -41.72 | TGACAGGTCGAGAGAGAGACCGCGGAAGAA |
| MER45C | BPC5 | 818 | 847 | + | -42.15 | CGAGAGAGAGACCGCGGAAGAAAGGAAAAA |
| MER45C | BPC5 | 812 | 841 | + | -43.72 | ACAGGTCGAGAGAGAGACCGCGGAAGAAAG |
| MER45C | BPC5 | 820 | 849 | + | -44.89 | AGAGAGAGACCGCGGAAGAAAGGAAAAAGC |
| MER45C | BPC5 | 814 | 843 | + | -48.00 | AGGTCGAGAGAGAGACCGCGGAAGAAAGGA |
| MER45C | BPC5 | 800 | 829 | + | -48.74 | AAAAACACCATGACAGGTCGAGAGAGAGAC |
| MER45C | DAL81 | 383 | 401 | - | -52.00 | AGATGCCGCGGGGCGCGTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
