Charlie8
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000107 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 2457 |
| Kimura value | 28.91 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie8 subfamily (autonomous) |
| Comment | 15 bp TIR; 8bp TSD with MER1-like NTCTAGAN bias. Nearly complete transposase (roughly <330-2102). |
| Sequence |
CAGAGGTCGCAAACTGGCGGCCCGCGGGCCGNATCCGGCCCGCAGACGTGTTTTGTTTGGCCCGCACAGTGTTTTAAAANATTTTGAATTAGTTGCCAACATTTAAAAATCGGGAGATTTCACATAAAAATCCGGATTTCCGGCTTCTCTTGAAAAATCGGAAGATCTGGCAACACTGGGCCCGCATTCCCGCGTGGCAACAATCGGCTGGAGCTGAGTAGCGGCTGCCCCCTTTAGACGGGGCATGCGCTCTCCAGTTCGCCACAGTCCCCACCACTCCCTATTGTCTCCCCGACACTGAGGCCGAGTGTCAGTTGCCATTTATCATCGCGCTTGCGCTGTTGTTTTTCTTATAGTAGAGTTAAGAGGAAAGTGAAATATTTCTTGTACCCATGTCTCTATCAAAAGTGGGAAAACGAAAGATAGACCGAGAGGGCCGCGTGTTTCAAGAAAAATGGGAGAGAGCATATTTCTTTGTGGAAGTGAAGAATATTCCTACGTGTTTAATATGCAAACAAAGTGTGTCTGTGTCGAAAGAATACAACTTAAGACGCCATTATGAAACAAACCATAGTAAGAACTATGACCGGTATACGGAAAAGATGCGTGATGAAAAACTTAATGAACTGAAAAAAGGACTGAAATTTCAACAGGGTTTGTTTTTGAATGCGAATAAAATAAGTGATGCTGCTGTGAAATGCAGTTATGTATTAAGTGAAAAAATTGCCCGGGCATCAAAACCTTTTACAGATGGCGAGTTTATAAAAGAGTGTCTATTGAATGCAGCAGAAATTATGTGTCCCGAACAGAAACAAGCATTTGCAAATGTAAGTCTAACCGGAAATACTGTTGCTCAGCGTGTTGAAGATACGGCTGAGAACTTACAGGACAAGTTGCGTGAAAAAGTTAAATCATTTGTGGCGTTTTCTATTGCAGCTGATGAGAGCACAGATATAAATAATACCACCCAGTTAGCTATATTTATTCGTGGTGTCGATGAGAATTTTGATGTGACCGAAGAACTTTTGGACATGGTGCCCATGACAGGCACAACATCAGGAAATGACTTATTTTTGTGTGTTGAGAAAAGTCTTGAAAAGTTTAATGTAGACTGGTCAAAATTAGTAAGCGTGACTACAGACGGTGCTCCTGCGATGGTCGGTGTTAACGTCGGACTTGTTACGAAACTTAAATCCAAGGTGGCAACGTTTTGCAAGGACACGGAACTTAAGTCCGTTCATTGCATCATTCACCAGGAATCGCTTTGTGCTAAAAAGTTAAAAATGGAACACGTCATGGACGTAGTAATTAACACCGTGAACTGGATACGCTCCCGTGGCTTGAACCACAGACAGTTCAATGCTTTGCTTGATGAATTGGATGCACAATACGGTAGTCTGCTGTACTACACGGAGGTTAGGTGGCTTAGTCGTGGCGTGGTGCTGAAGAGATTTTTTGAACTGTTGAAAGAAATCGACTTGTTCATGTCATCCAAGGGAAAATCCCCGCCTCGGCTCACCAGCGAAGACTGGATCAAAGACTTGGCCTTTTTGGTTGACATTACAACCCATCTAAACACTTTGAATATTTCTCTGCAAGGGCGTTCACAAGTAGTTACACAAATGTATGATTCGATTCGCTCATTCCTAGCGAAATTGTGTCTTTGGGAAACTCATTTGGCAAGGAATAATCTGGCCCACTTTCCTACGCTGAAATCGGTTTCCAGAAATGAAAGTGATGGCCTGAACTACATTCCCAAAATTGTGGAGTTGAAGACTGAATTCCAAAAAAGGTTCTCTGATTTCAAACTTTATGAAAATGAACTAACATTGTTCAGTTCGCCTTTCTCAATTAATATTGATAGTGTGAATGAAGAGCTACAAATGGAAGTTATTGAACTGCAGTGCAATACGGTACTGAAAACTAAATACGACGACGTTGGAATACCAGAATTCTACAAATATCTCGGGAGTAGTTACCCTAAATATAAAAACCATTGTGCAAAGATTCTATCCATGTTCGGAAGTACCTACGTTTGTGAACAGCTGTTTTCCATTATGAAACTGAATAAAACTAAATATCGCTCCCAGTTAAAGGATTCAAGGCTGAATTCTGTACTGCACATCGCAACGCGAAATACAAGACCTGACATTGACATCTTGGTGCAGAAGAAAAGGTGTCAGATTTCTGGTTCCAAATCAAAGGAGTAACGAATTACGAAAGAAAAATTTAATAATTAAATATTTCTATTTTTCAATTTGTATTTTTTCAATTTCGAATTTAAAATATAATCTCCAATATTATACATGTTTGTATTATGTTACATGCTTACGCCATAGTTCAGTAAAAATAAAGTTTGATTATATTTCTGGCAGTTGATTTTTCTTACACCTGGCCCGCTTCACTCATTTACGTTACCTGCCTGGCCCCTGTAGGCATTTGAGTTTGCGACCCCTG
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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 |
|---|---|---|---|---|---|---|
| Charlie8 | SEP3 | 1784 | 1793 | - | 15.64 | CCTTTTTTGG |
| Charlie8 | pnt | 837 | 845 | + | 15.57 | ACCGGAAAT |
| Charlie8 | dl | 1496 | 1507 | - | 15.46 | GGGGATTTTCCC |
| Charlie8 | FLI1 | 837 | 845 | + | 15.44 | ACCGGAAAT |
| Charlie8 | TSO1 | 2274 | 2288 | - | 15.44 | TATTTTAAATTCGAA |
| Charlie8 | CUP2 | 2166 | 2176 | + | 15.38 | CAGAAGAAAAG |
| Charlie8 | RAP2-9 | 1156 | 1164 | - | 15.33 | CACCGACCA |
| Charlie8 | STB3 | 2263 | 2273 | + | 15.30 | ATTTTTTCAAT |
| Charlie8 | TCX2 | 2272 | 2286 | + | 15.28 | ATTTCGAATTTAAAA |
| Charlie8 | SREBP | 1432 | 1441 | - | 15.26 | ACCACGCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
