Charlie5
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000027 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 2624 |
| Kimura value | 17.76 |
| Tau index | 0.9941 |
| Description | hAT-Charlie DNA transposon, Charlie5 subfamily |
| Comment | Transposose (roughly <841 to 2439) is 50% similar to the human protein AC004883. MER3 appears to be a recombinant product of 5' end fragments of Charlie5. |
| Sequence |
CTGCGCTGTCCAATACGGTAGCCACTAGCCACATGTGGCTATTGAGCACTTGAAATGTGGCTAGTGCGACTGAGGAACTGAATTTTTAATTTTATTTAATTTTAATTAATTTAAATTTAAAAACTGAAGCAGTGTAAAATATTTTTCCGTTAAACACAACTTTATTGTTTTGGTAGGACTACATTTCACTTTAACCGTTGCATCGCGTAAGATATTATTGTTGTATTGTAGTGCGCGTGTCGGGCACGTGCGTCGTTTCTAGTATTACACATAAACACATCACCGATCTAGTCGGTGTCAACGGATTGATTCAGTTCGAATGATTTTTTTCTACGCACCGATGTAACATTGTAATGTGTTTATTTGAATATTTTATGCAGACAGCACGAGTTACAGTGATACCTATGTAAATCGTAATTGGTAATTAAATTGAAATACTTATTATTTTAATTATAATATAATTAAATTATTTTTCTAGTTTAAAAAATAAGTATGGACAAATTTTTAAATTTAAAACGAAGGCATACTACTGATGCAGAATCGAGTGGAGATGCAGAAGCTAGTACTACGACCGGAACAGTAAAGAAAAAAAGAGACTGGAAGAAGGTATGTCGCAAATTTCACGATGAATGGCAATTGCAATTTGCTGCGGCAGAGCAAAACGAAAAAGCTGTTTGTTTGTTGTGTAAAAAAATTTTTAAAGATAATAAAGTGGACAATATTAAGAGACATTTTCAGCAAATACATAGTGAATTTGATAAGAAGTTTCCTCTCAACAGTCAAAAAAGAATCGATGAAATTAGTCGCCTGAAATCAGAATTAAATGTCCAACAAAAATTTTTTAAATAATTTTTAACAGGATCTGAGCTTGTAACTTTGGCCAGCTATAAAACGGCTTGGATTCTTGCACAAAAAAGAAAACCATTTTTAGATGGAGAGATGGTAAAANAAATTATTATTTCAGTTATGGAAATTTTGTTAGAAAATTATGAGGAAAAGACTAAAAAAGATATTTTACAAAAAGTGAAAGATCTTCAATTAAGCCACCAAACAATTGCCCGTAGAATACAAGACCTTTCTAACAATATCAAAGATCAATTGATTCAAAATTTGAAAAATTGCAAGTACTTTTCTTTAGCTTTAGATGAGTCGTGCGATATAAGAGACACTGCCCAATTAATACTTTGGGTACGTTTTGTCTCAAAGGACTTCCAAATTTACAAAGAAATGTTGNCAATTCGCGGCCTAAAAAATCGAACTCGTGGCGTAGATATTTTTNAATCTTTTACATCTGTCAAAGAAGAATTTCAGCTAGATATGAAAAAATTAGTTTCTATCACGACGGACGGTGCTCCAGCTATGTTAGGTCAAAAATCCGGATTTATTGGAATTTTAAAACAAGAGACTGATGTTTCCCTTATTGCTTCGTTCCACTGTATGATACATATTGAAAATATTTGTGCTCAGTTTTCTGAAGCAGACTCTATGAAAAGTGTCATGGATACAGTTGTTAAAATCGTTCAGTATATACGTGCAAATGCTATGAATCATCGCCAGTTTATGGAACTGTTGAAAGAAATAGAAGACAATGAATTTAATGATCTTGTGTTCTTTGCCAATGCTCGTTGGTTGAGTCGTGGAAGAGTTTTACAAAGATTTACTGTACTGTTAACTCCAATTCAAGATTTTCTTGAAACAAAAGGAATGCTTGCCAAATATTCAATAATCAAAGACAAAAAATGGCAGTGTGATTTACGTTTTCTCACCGATATCACACTGCATATGAACGAGCTAAATTTGAAGCTCCAAGGAAAGGAAAAGCTTATTTGTGACCTAGCTAGACAGGTACGAGAATTTATGTTGAAATTGAAACTTTTCATAATACAAATCAATAATAATGATTTTACACATTTTTCTAACATGAATCAATATGCAGAAGATTTTAATTGTAATCGACAGCATTATGTAAATTGGCTGCAAAAACTACAAGAAAAATTTGAAGAACGCTTTGTTGATATTGATAAATTTAGAGTTGCTTTTCAATTTATGCAATACCCCTTTGAATTCGATGTTAATAATACTGAGTTGACACAAGAGTTAGTGAATTTACTTAACTTGGACAGACGTAGTTTTGAAACTGATATGCTTTTGCTTCAAAGTCAAATCAATTCTTCTAAAAAAGATGAACCAGTTTTGTCAATGTGGATGCGAATATTAAAGGAAAATGATTTTTTGATACTCGATTCAGTTATTGGAAAACTTTTAAGTATGTTTGGAACAACTTGGGTATGTGAATCTACTTTTTCAACTGTAAATTTTATGAAATCTAAATACAGATCAAGTATTTCCGATGAAAATTTAGCGTCCGAATTGAGATGTGCTGTAAGTGTAAAATACACACCGGATTTCGAAGACTTAGTACGAAAAAAAGAATGTAAAATATCTCATTAATAATTTTTATATTGATTACATGTTGAAATGATAATATTTTGGATATATTGGGTTAAATAAAATATATTATTAAAATTAATTTCACCTGTTTCTTTTTACTTTTTTNAATGTGGCTACTAGAAAATTTAAAATTACATATGTGGCTCGCATTATATTTCTATTGGACAGCGCTG
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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 |
|---|---|---|---|---|---|---|
| Charlie5 | DOF5.1 | 2537 | 2555 | - | 20.61 | AAAAAGTAAAAAGAAACAG |
| Charlie5 | DOF5.8 | 2537 | 2555 | + | 19.89 | CTGTTTCTTTTTACTTTTT |
| Charlie5 | TSO1 | 501 | 515 | + | 19.72 | ATTTTTAAATTTAAA |
| Charlie5 | TCX2 | 109 | 123 | - | 18.87 | TTTTTAAATTTAAAT |
| Charlie5 | TCX2 | 1102 | 1116 | + | 18.48 | ATTCAAAATTTGAAA |
| Charlie5 | SOL1 | 109 | 123 | - | 18.39 | TTTTTAAATTTAAAT |
| Charlie5 | LRL2 | 236 | 250 | + | 18.37 | CGTGTCGGGCACGTG |
| Charlie5 | SOL1 | 502 | 516 | + | 18.15 | TTTTTAAATTTAAAA |
| Charlie5 | TCX2 | 502 | 516 | + | 18.03 | TTTTTAAATTTAAAA |
| Charlie5 | Gsx | 417 | 436 | - | 17.97 | ATTTCAATTTAATTACCAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
