Cheshire
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000109 |
|---|---|
| TE superfamily | Charlie |
| TE order | DNA |
| Species | Eutheria |
| Length | 2420 |
| Kimura value | 18.40 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Chesire subfamily (autonomous) |
| Comment | 16bp TIR, 8bp TSD. |
| Sequence |
CAGGGGTCGGCAAACTACGGCCCGCGGGCCAAATCCGGCCCGCCGCCTGTTTTTGTACGGCCCGCGAGCTAAGAATGGTTTTTACATTTTTAAATGGTTGAAAAAAAAATCAAAAGAAGAATAATATTTCGTGACACGTGAAAATTATATGAAATTCAAATTTCAGTGTCCATAAATAAAGTTTTATTGGAACACAGCCACGCTCATTCGTTTACGTATTGTCTATGGCTGCTTTCGCGCTACAACGGCAGAGTTGAGTAGTTGCGACAGAGACCGTATGTGGCGCTCTCATCGCTTCGCACTGCTGCTCGGCGCACTACAAATCGCAGTGACGCAGTTATAACTCGACAGCGTTTCGAGTGCCACGCGTATCGCCGTACCGCGACATTTTTTTTTATTACCAGTGCATACCCATCATGTCAAAACAAGAAAAGAAGAGAAAAGTGGACTTCGAATGTCGCGCTTTTAAGGCACAGTGGAGTGTGGATTATTTTGTTATCGAATTAGATGGCAAAGCATTGTGTTTATTATGCAATGACACTATAGCTGTGCTAAAAGAATACAATATACGTCGACATTACCAGACTAAGCACTCATCACAATATTCCCAACTCACAGGAAAGCAACGGTCAGAAAAATTAGAAAATTTAAAACGGAATATCTCATCACAGCAGAATTTCTTCACAAAAATAAAAAATGAAAATGAGGCTGCAACCAAAGTAAGTTTCCGAGTGGCTCATTTGTTAGCCAAGCAAGGAAAGCCGTTTACCGATGGTGAGTTAATTAAATCGTGTTTGATTGCAGCAGCCGAAGAAATGTGTCCAGAGAAAATAAACTTGTTTAAGACTATTAGCCTTTCGGCGAGAACAGTTGCTCGAAGAGTTGAGGACATTGGGAGCAACATCAATAGTCAATTAAAAAACAAGGCAAATGATTTCGAGTGGTTTTCCTTGGCTCTTGATGAGTCGACAGATGTTACCGATACTGCTCAGTTGTTTATTCGAGGAGTCAATGCCGAGTTTGAAGTGACTGAAGAATTAGCCTCTATGAATAGTCTGCGTGGAACAACTACAGGCGAGAATATTTTCAAAGAAGTTGAGAAAACACTAATTCAGTACAACCTGAAGTGGAATCTGCTAAGATGTGTTACAACTGATGGTGGTAAAAATATGTGTGGAGCAGAAAAAGGCTTAGTTGGACAAATTTACAAAGCTTGTGAAAATGTAAGGTGTTTAAAGCCTATGGTTATTCATTGTATTATTCATCAGCAGGTACTTTGCGGAAAATATTTGAATCTATCATGTGTTATTGAACCAGTAGTGTCAACGGTGAACTTCATTCGCTCTCGTGGACTTAACCATCGTCAGTTCCGTGAATTTTTGTCAGAAATAGAAGCTGAATATCCTGACTTGCCCTACCACACAGCAGTTCGATGGCTTAGCAGTGGTAAAGTTTTATTGCGATTTTTTGAGCTCAGGGCCGAGATTGAAATTTTTCTGAATGAGAAGAACCGCCCTCAACCACTATTATCGAACACTGAATGGCTTTGGAAATTAGCTTTTGCTGCAGACTTGATAATGTTTCTTAATGAATTCAACCTAAAATTACAAGGCAAAACAGCGCTTATATGCGAAACTTATACTGCGGTAAAGTCATTTCGATGACAACAACTATTGTTTGAATCACAAGTAATGTCAAGCTGCTTTATACACTTCCCGTGCTGTCAAAAGTTAAAACAAGAAGCGAGATCTCCATTCCCACACAAATTTGCAGCGGATATATTTTCCGAGCTCAAACTACAGTTCCAGCAGCGTTTTTCGGACCTCGATGCAAGTGCAAAGGAAATTTCCATATTTCAAAATCCATTTAACTGTGCAATTGAGGAGCTTCCACCTAACCTTCAATTGGAAGTGATTAATCTGCAATGTAATGACATGCTAAAAGGCAAATATCAAGAGAAGAATCTAATAGAATTCTATAAATGCCTTCCAAGCGATGAATATGCTCAATTAAAATCATATGCTCGTGGATTGATATCAGTATTTGGCAGTACCTATCTGTGTGAAAAGACATTTTCAAAGATGAAATACGTAAAATCTCATTACAGATCAGCATTAACAGATGAACATTTGCAATCGATTTTGATGATAGGGAACACTAACTTTGAACCCCAATTAAGCGAAATGTTATCCCCCCAAAAAGAATTCCATTCTTCTCATTAGTAGACCTGTATTACAAAAAATTGTACTCAATTATTATTATTATTATATTTTGAATTTCGTCAATAAAAATTTTGTGGAAATTTGTTTTCTCTCTTGTTATATAAGTACCTACATAATATCCTCGATTTTGCCTCTTGGCCCGCAAAGCCTAAAATATTTACTATCTGGCCCTTTACAGAAAAAGTTTGCCGACCCCTG
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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 |
|---|---|---|---|---|---|---|
| Cheshire | TCX3 | 152 | 163 | + | 18.97 | AAATTCAAATTT |
| Cheshire | TCX6 | 639 | 653 | - | 18.72 | TTTTAAATTTTCTAA |
| Cheshire | SOL1 | 639 | 653 | + | 18.34 | TTAGAAAATTTAAAA |
| Cheshire | lin-54 | 150 | 162 | + | 18.31 | TGAAATTCAAATT |
| Cheshire | DOF3.6 | 100 | 120 | - | 18.11 | TCTTCTTTTGATTTTTTTTTC |
| Cheshire | TCX2 | 147 | 161 | + | 17.37 | ATATGAAATTCAAAT |
| Cheshire | DOF3.6 | 428 | 448 | - | 17.20 | TCCACTTTTCTCTTCTTTTCT |
| Cheshire | TSO1 | 638 | 652 | + | 17.19 | ATTAGAAAATTTAAA |
| Cheshire | CDF5 | 428 | 448 | - | 17.05 | TCCACTTTTCTCTTCTTTTCT |
| Cheshire | SOL1 | 147 | 161 | + | 16.46 | ATATGAAATTCAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
