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
|
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 | EWSR1-FLI1 | 1415 | 1432 | - | -11.84 | GGAACGAAGCAATAAGGG |
| Charlie5 | BCL6B | 2165 | 2181 | - | -17.87 | TTTTTTAGAAGAATTGA |
| Charlie5 | BPC5 | 576 | 605 | + | -45.17 | AACAGTAAAGAAAAAAAGAGACTGGAAGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
