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 | BAD1 | 715 | 726 | - | 19.90 | CCGGGGCCCCGC |
| MER45C | BAD1 | 275 | 286 | + | 19.42 | CCGGGCCCCGCC |
| MER45C | Zm00001d049364 | 415 | 425 | - | 19.30 | CGGCCGCCGCC |
| MER45C | ZNF320 | 577 | 596 | + | 19.00 | GGCGGGCCCGTGGGAAGGGG |
| MER45C | Klf6-7-like | 343 | 362 | - | 18.86 | CGCGCCCGCGCCCAGGCCCC |
| MER45C | ZNF320 | 257 | 276 | - | 18.85 | GGGGCACCAGGGGGCAGGGG |
| MER45C | BAD1 | 274 | 285 | + | 18.56 | CCCGGGCCCCGC |
| MER45C | ZNF281 | 615 | 624 | - | 18.37 | GGGGGCGGGG |
| MER45C | PATZ1 | 402 | 412 | + | 18.24 | CGGGGCGGGGC |
| MER45C | KLF12 | 403 | 411 | + | 18.01 | GGGGCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
