Charlie24
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000101 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Theria_mammals |
| Length | 2449 |
| Kimura value | 31.14 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie24 subfamily |
| Comment | 14-16bp TIRs. ORF (roughly 354-2162) encodes a transposase closest to Charlie11 transposase (>50% identical, >67% similar). |
| Sequence |
AGATGTTTTTAAACTGNAGTCCATAGACAGGNCTTTAGGGGGTCCGTGAACCGGACACAAAAATATTTTTTTCTTTNATTTCTTTCCTGTTACTTTGAAAATTGTCTTTGTGAAAAAATTATTTTTATGTCAAATTATGTTATTAAGGTATTGTTTCACTCCAAACAAGTGTAGGGTGGCATGGGATGCTACTGTACATGGTCAGGTAATGTACAATTATCATCGTTACCATGTTATGACGTCTAGAATAGTTTCCCATTGATAGGAATTAAAGAAAACGTACCCTGCCATTATGATTATGGACATCTGTCTTTGTTTACATCGGGCCTAGCTTAAGTTGGAAAATGTCAAAGAAAAGAAAGTATAATGAAGCTTACGTATCCTTTGGTTTTACTTTCATCGCCGAACGTGATGGGACACAAAAGCCACGGTGCTTCTTGTGTGGCAAGGTTCTTGCCAATGGAAGCACGAAGCCAACAAAGCTGAAGGAGCACCTTATATCTGTCCATCCTGAAAATACATCAGACAGTGTGGATCTTTTTCGTGAGAAGAAGGCTCGATTTGAAAAGGCTGGAACTTTACCAAAACTTGGATTTGCCCCAACACAAAAGCCTTGTCTTGAAGCATCCTACAAGGTTGCTTATCGCATTGCCAAGCAAAAGAAGCCACACACAATTGGAGAGACCTTGGTGAAGCCATGTGCCCTGGAAATGGTCGAGCTGGTTTGTGGCTTGGAGCAGAGGAAGAAAATTGAAGCAGTGCCTCTGTCAAATGACGTCATCCACTCCAGAATCGCTGACATTTCTTCTAATATTTTGAAGCAGGTCATGGAGGAATTGGCAGCTATGCCATTTCCCTTCAGCATGCAACTGGATGAAACTACTGACGTCTCTCAGTGCAGCCAGCTCCTGGTTTTCGTCCGTTATGTGCACGCTGACGCCATCAAAGAAGAATTCCTATTTTGTGAGCCCCTTTTGGAAACTNCAAAGGCCGTCGACATCTTCGAAATGGTGAAAAGTTTCTTTGCCAAGCAAAACTTCGACTGGAAGAAAAATCTTGGTACTCTGTGCACAGATGGAGCACCTGCGATGCTTGGCAACACATCTGGTTTTGCTGCTTTGGTGAAGAAAGAAGCTCCACACGTCATCGTGACTCGTTGCTTTCTACATCGGCATGCATTGGCGTCAAAGACTCTGCCAACAATCCTGAAAGAAGTCTTGTCTACTGCCGTGAAAGTCGTCAACTTCATCAGAGCCAGGGCCTTGAATCACCGCCTTTTCAAGAGGTTTTGTCAAGAAATGGGAGCAGAATATGAAGTTCTTCTCTACTACACAGAAGTTCGCTGGCTTTCCAGAGGACAAGTCTTGAAGCGCTTGATTGAACTTCGGGCAGAAGTTTCACTTTTTTTGAGAGAAAAGGAAAGCCCACTCTCAGAACAATTTGACAGGGAGGAGTTCATTCATGGCTTGGCTTACTTGGCGGATATTTTTGGCCATATGAATGAGGTAAATCTTTCGATTCAAGGCCCTGCAGTCACCATTATGGATGCTGCTGAAAAACTACGAGCTCTTTTGGCCAAGCTGCCACTCTGGAAGAGGAGATTGGAGGCAGACAACTATGCGAACTTTCCAATGCTGGAGGAAGTGCTTCTGCAGGCTGGAGTCGAGAGTGACAAAGCCTTGTCAATTTCTCTGCAGGCAGAAATCTGCAGACACCTGGAAACACTGCAGAACTCTTTTGAAGGTTACTTCTGCTCAGACGACCTTAAAATTGAAACGTGGATTCGTAATCCTTTCCTTGCTGACATAGACAGCATCAATGATGCAGACCTTGCCAAAGATGACCTCATTGACTTGAGGACAAAGGAAATGATGCGACATGAATTCAACTCGAAGAGTCTTGGAGAATTCTGGTGTTCCTTGACACAAGCCTACCCTCATCTGGCAAAGCGAGCTATGGGAGCTCTGATTCCGTTTGCTACTACATACCTTTGTGAGTCAGGGTTTTCAGCACTTGTTGCCATCAAAACGAAAAGTCAAAATCGATTGGATGTCAAAGATGACATGCACGTTGCCATGTCAAAGACCACTCCACAATTTCAANCTTCATTCAAGCCAAACAACAGCAGCCTTCTCATTGAAATTTACTTTTGAGCAGAATTAAAGTTTACTTTTGTTTTATTTGCACAATTTGGATTTATTTCNATTTTTTTCAGGAAGTGGCCATTAATTTTTGCATGAAAAATGAGAGTGAGAGACATAATTCTTTGTAAAGATTGTTTTTATATTCTGTCTATGTGAAGGAAATNAATTTCCAATGCAATAAAATAAATTGTATGCAAAATATTTGTGTGTATGTGTNTATGTGCATTTTTTTCTGGGGAGAGAGTCCATAGCTTTCATCAGATTCTCAAAGGGGTCCGTGACCCAAAAAAGGTTAAGAACCACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie24 | JDP2 | 772 | 781 | - | 18.34 | ATGACGTCAT |
| Charlie24 | ATF3 | 772 | 781 | + | 18.19 | ATGACGTCAT |
| Charlie24 | ATF3 | 772 | 781 | - | 18.19 | ATGACGTCAT |
| Charlie24 | TGA10 | 773 | 782 | - | 18.17 | GATGACGTCA |
| Charlie24 | Creb5 | 772 | 781 | + | 17.80 | ATGACGTCAT |
| Charlie24 | Creb5 | 772 | 781 | - | 17.80 | ATGACGTCAT |
| Charlie24 | TGA2 | 772 | 781 | + | 17.45 | ATGACGTCAT |
| Charlie24 | TGA2 | 772 | 781 | - | 17.45 | ATGACGTCAT |
| Charlie24 | JUNB | 771 | 781 | - | 17.44 | ATGACGTCATT |
| Charlie24 | Creb1 | 772 | 781 | + | 17.43 | ATGACGTCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
