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 | Zm00001d020595 | 415 | 424 | + | 17.35 | GGCGGCGGCC |
| MER45C | KLF14 | 403 | 411 | + | 17.26 | GGGGCGGGG |
| MER45C | KLF14 | 427 | 435 | - | 17.26 | GGGGCGGGG |
| MER45C | KLF14 | 615 | 623 | - | 17.26 | GGGGCGGGG |
| MER45C | PATZ1 | 657 | 667 | + | 17.25 | GCGGGAGGGGG |
| MER45C | Klf15 | 401 | 422 | - | 17.07 | CCGCCGCCATGCCCCGCCCCGA |
| MER45C | ZNF148 | 657 | 666 | - | 17.06 | CCCCTCCCGC |
| MER45C | KLF5 | 403 | 412 | - | 17.00 | GCCCCGCCCC |
| MER45C | Zm00001d052229 | 415 | 424 | - | 16.96 | GGCCGCCGCC |
| MER45C | ERF105 | 413 | 422 | + | 16.95 | ATGGCGGCGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
