Charlie6
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000105 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 3519 |
| Kimura value | 23.01 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie6 subfamily (autonomous) |
| Comment | Imperfect 16bp TIR. TSD: NTCTAGAN. Charlie6 is unusual in that no common deletion products have been amplified. A member of the MER1-group. ORF roughly at pos. 607-2496. |
| Sequence |
CAGAGTTTCTCAAATGGGGTTTCTGCGGAACCTAGGGTTCCGCGAGATGTCGCTAGGGGCTCCGCGAGANATTGTGATTGAAAAAAATATAGATTTTTGAACTTCGCGCGCCGCGCGATGCTAGCACTCGCAGTGATGGACAGTGACCGAGCAGCCCCGTTAGCAATTTCGTTAGAGGTCTTTCAGCCTCGTATGGCAGTGCGCAGTAGGACCATGTTCATTTGGNTGAGTCCATTCTCAGTTTTTGACGCAAGATAGGGGAGGCCGTTGATAANTGGTGAGTGCTGTATTGCACGGAGGGGAGGACGGTAGGCTGATGACGTCAGCCTCTCCCTCCCGAATTACCTCCCCCAACCTCCCCTTNCGCGCCGCCGACTGACTTACGGGAGCGAACAAGCTCTACCGGTGTAATAGAAAATCGGAGGGAAATTTTCATTCTAAAGAAGGAATTTTTACGCGCCGCGACTCAGCTGCCCCCCTGCCGCTTTGCTGTTGTTGTAAACGTTGCAAAACGTGGATTGTGTAGGTTAGAAGTGAATTGTATTGTGAAGTTTTCGTATTTTTTGCGATTTTCTCGTTTAGTTATTTATTATGCCCTTCTGTTTTATATTTTATTAGCGTTTGTGTTTTACAAACATGTCTGACGGTCCAATGTGGCGATTTTTGAAGACGAGGTGTGAGACGGAAGAGGAGGATTCTAGGCCTAGGCCTACGGACAATTCTGATAAGGTTAGTGATGAAGAATTACAATCTTCTGAGTCATTTCACTGCACTAGTGCAACAAGGGACACAAAAAAAGTCCGTCTTTACAATGAAAGCTACTTATCAATGGGTTTTACGTGGNCTGGTAATCCAAGTTGTCCTATTCCATTGTGCGTCGTCTGTGGCAAACAACTTACAAATGCAGCAATGGCTCCAGCAAAATTGAAAAGACACTTAACTACAAATCACAGCCATTTGACAAGTAAAGGTGCTGATTATTTTAAACGGCTATTGGAATCTCAAAACAAACAGAGTAAAGCTTTTGTTNAAAAAGTCACATTCAGTGAAAAGGCTCAGGAAGCAAGTTATTTAGTAGCAGAACTTATTGCCCAGAAAAGGAAAAGTCACACAGTTGGTGAGAACCTAATAATGCCAGCATGTAAAATTATAGTGAGTAAAATGCTAGGACAAGATGCAGTACGAGAAATTGAAAAGGTTCCACTCTCAAACAGTACGATAAGTCGACGTATTGATGACATGTCACATGATGCTGAAGAGGTTTTGTGTAATAAACTGAAAAACAACAGCTTCTCTATCCAGGTTGATGAGTCAACAGATTTCACCAATAAATGTCATGCTGTAGCATTTGTAAGATTTGTAAATGATGGTGAAATTCAAGAAAACTTTTTCTGCTGCAAAGAGCTGCCCGAAACAAGCAAAGGCCAAGATATATTTAATGTTTTGTCTTCATATCTGGAAACAAAAGGTCTGTCTTGGAGGAACTGTGTTGGCATCTGTACTGATGGTGCCCCATCAATGGTTGGCTCCATGAGAGGTTTCGCCTCTCTTGTAAAAAAAGAAAATCCTGACGTTGTCACAACACACTGCTTTCTTCACAGAGAGGTGCTGGTGTCAAAAACTCTTGGAGATGAAATGAAAAAAGTTCTGGATGATGCTACAAAAATGGTTAACTTTATTAAACAAAGACCAGTTCACTCGAGAATGTTTNAAAAACTGTGTGAAAACCTGGACAAAGAGCACATAAATCTCCTGCTACATACAGAAATCCGGTGGCTTAGCAGAGGAAGAGTTCTCAACAGGGTGTTTGAGCTGAAAGGTGAATTGCAGGAGTACTTTCAAGAAAATAGTAGGCCAGATTTTGCTGAGTGCTTTGAAGATGAAGAATGGCTGCAGAAACTAGCCTACTTAGCAGACATTTTTCATCACATGAACCAGTTGAACAAGTCTCTGCAAGGCCCTGGAGAAAATGTTTTGACTTCAAGTGACAAGATTCTTGGATTTAAAAGGAAACTGAATCTTTGGAAAAATCATGTTGCAAAAGGAAATCTTGAAATGTTTCCACTGCTGCTTGGGCTTGAGAGTGAGGAAGGATATCAGCAAGTCTCAAGTCTTATTGAAAACCACCTGGAAGAACTGCAGAACAAAATTGAACAGTATTTTCCCTCCCTTTCAACACAAGTGTATGACTGGGTGAGGGACCCTTTCTCTGAATCTTCTGCTCAGCCTGAGAACTTGACTTTGAGAGAAGAGGAAGAACTTTGTGAGCTGCAGTCTGATCGTACACTCAAGATGAGATTTACTGATCTGCCCCTAGACGAGTTCTGGATTTCTGTGAAAGAAGAGTATCCTGCCATTCACAGGAAAGCAATGAACATTTTGCTGCAGTTTTCAACTTCTTACATGTGTGAGCAAGCTTTTTCTTGTTTAACAAGCATCAAGAGCAAGGACAGAAATCGTCTCATTTCAGTTGAAAATGAAATCCGTGTGTGCTTATCTCAAGTTCGACCCAGAATTGAGTATTTGTGCAGCAAAAAACAAGCACAGGTTTCACATTAAAGAGGTAAATTTCATTCTTTATTTTTAGTTTCAAAAATAACACTTTTTATGCATATATAGGCCTATAAAAGAGATCAAGAAACCAACACATGTGTATAATAATTTTGTAACTGCTAGGCCTATATTTGAGCCTGATCATGTCACTCAGTAAGAAAATATTTTTTCAAAGTCTTATATAAAATTGTGTCTTAGGCTATATTTTTATTCATATTGCTTTGGCTTATGGTTTTAGTAGCTTTACTATTCAACATTGTCAATAAATTTTCATGTTGTAAATAACATTAATTAAAATCAATTTACAACCTTTATTTAAATTAAATCTACCGAGCCTACCTTTAGAAAAATTAAATCCCATTTTGGCTTAAGCCAGTTATTTAACAGAAATTTATTATGTTTGCCTTATGAGTTTTTAAAATTTATGAAAAGGAAAGAAATTAATTTCAAGAAAGGTAAGCTAAGCTTAATACCTTNTTTTTTTCAAGAAAGNTTGGCTAAAAAGTCATTTTTAGTTTTAAATAGGGAGAAAAACTACTCTTGCACATACCATATACCACATACCATACCTCATTAGCATCTTGTATAGTAGAAATTTGTGATAAGACTTTTAGGCCTACTTGGATAAGGTNAAAAAATCAAGTAGGAAATTTTTTAAAAAAGAAAAACTGAAGTTTCCTCTACCTACACTACTGACTTGCATTAGAGTTGATATCCTTTGTGGGGAGGGGGAACCACACAAAAAGAGTAGGCTAATAAGTTGGCCAAAATAAACAGATCCACAGAAAAATATCATTCTCTACTCAAAAGAGCATTGACAATTATTATTGGATTATTATATCTACAACTTACTGATCACGCTAATGTACCATGAGCTGTAGATATAATAATTTTTATGCAGGGGTTCCCTGAGACCTGAAAATTATTTCAAGGGCTCCTCCAGGGTAAAAAGATTGAGAAAGGCTG
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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 |
|---|---|---|---|---|---|---|
| Charlie6 | EWSR1-FLI1 | 300 | 317 | + | -11.04 | GGGAGGACGGTAGGCTGA |
| Charlie6 | EWSR1-FLI1 | 466 | 483 | - | -11.92 | GGCAGGGGGGCAGCTGAG |
| Charlie6 | BPC5 | 2190 | 2219 | - | -43.84 | GAAGATTCAGAGAAAGGGTCCCTCACCCAG |
| Charlie6 | DAL81 | 471 | 489 | - | -52.00 | CAAAGCGGCAGGGGGGCAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
