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 | PI | 1092 | 1105 | + | 18.29 | CCAGAAAAGGAAAA |
| Charlie6 | FOS | 315 | 327 | - | 18.22 | GCTGACGTCATCA |
| Charlie6 | TGA10 | 316 | 325 | + | 18.17 | GATGACGTCA |
| Charlie6 | Znf423 | 27 | 41 | - | 18.16 | GGAACCCTAGGTTCC |
| Charlie6 | NAC013 | 2420 | 2438 | - | 18.03 | ATGCTTGTTAAACAAGAAA |
| Charlie6 | NAC031 | 2420 | 2438 | - | 17.92 | ATGCTTGTTAAACAAGAAA |
| Charlie6 | TGA10 | 318 | 327 | - | 17.79 | GCTGACGTCA |
| Charlie6 | NAC011 | 2419 | 2439 | + | 17.77 | TTTTCTTGTTTAACAAGCATC |
| Charlie6 | NAC038 | 2420 | 2438 | - | 17.74 | ATGCTTGTTAAACAAGAAA |
| Charlie6 | NAC058 | 2420 | 2438 | - | 17.66 | ATGCTTGTTAAACAAGAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
