Charlie25
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000102 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 2524 |
| Kimura value | 30.06 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie25 subfamily (autonomous) |
| Comment | 14 bp TIR. Complete ORF (roughly 384-2366) encodes a transposase closest to that of Charlie3 (44% identical, 62% similar). |
| Sequence |
CAGTGTTTCTCAAAGTGTGGTCCGCGGACCACTGGCGGTCCCCNGCGGTTCTATCAAGTGGTCCGCAGGCGGTTTGGCGGTTTCAGAGGAAAAAGCGATGAAACAATTTTGTTCACATACATTTCACAAATTTGAAATGTAAGATTAATTATGATTTTCACAGAAATCCCGTTACGTTCTTAATAATCGTTACGTTCTTAAAGGTTGCGCATGCGCTACAAGGACTGCGTTGGTCAGTTCGTCTCGGCTAACATTCAGTTAACAGGGTGCAGTTCGTCTCGGCTAACGTATTTTCACGTCATTTGCATGTTATTGTTTACGTTTGTTAAATTTGCATTTTTCGTTGTTACTATTGTGTTGTATTATATCCCCAATTCACAAAAATGGATCAATGGCTCAAAAGTGGTTCATTGAAGCGTAAAAGTAGTGATGAAAATAGTAACGTAAATACTACAACTCAGAATAACGTCATAAACGTAAATAGTGAACAGGACTCCAGTGCGAATATAGAATGTGAATCTGTATGTGCTGGGACAAGTGAATCTGCGAGTGTGATGATTTCGCACAAGCAGCCGAAAAAGAAAAGTGCGAATAGGAAGTACGACGATGAATATCTGAAAATTGGATTTTATTGGACCGGCGATCCATTTGCCCCTAGTCCCCAGTGCGTTGTCTGTTATGAAACTTTGTCAAATAGTGGCATGAAGCCATCGAAGCTTTCGCGTCATTTTCAAACAAAGCACAGTGACCTCTCTGGTAAACCAATCGAGTTTTTCCAGAACAAGCGCAAAATAATGCTTTCCAGTACGAAATTGATGAATTTTGTCGCTAAAGGCAGAGAAGAGACCAAAACTACAGAGGCATCATTCAAAGTTGCACTCCTTATAGCAAAAACAGGTACAAGTCACACTATTGCCGAGAAGCTTGTAAAACCAGCCGCAAAGTTAATGACAAATATTATGCTCGGAGAGAAAGCAGAACGAGCTATTGGCAAAATTCCTTTATCAAATGACACTGTTGGACGTCGCATAATATCAATGGCATACAATGTGGAAGAGCAATTACTATCACGTGTGCGTGCTAGCAGATATTTCGCTTTACAGTTGGACGAAACCACTGATGTGCAGAGTATGAATCAGCTCTTGGCATATGTGCGGTACATATATGAGGGAGAAGTGCTCGACGACTTTTTGTTCTGTTTATCACTGAAAACCCATGCTACAGGAGAAGATTTTTTTTATTTAGTTAACGATTATTTTGTGAGCCGTGATGTAGACTGGAAAAGGTGCGTTGGGATCAGTACTGACGGAGCACCAGCTATGTGTGCAGCAAGGAAGGGCGTTGCTACGCGAATAAAAGAGGTTGCACCTGAATGCCAATCCACACACTGCTTTATTCACAGAGAACAGTTGGCGGTCAACAATATGCCTCCTGATCTTGATTCAGTGTTGAAGGAAATAGTGAAAATTGTGAATACGATCAAATCGCGGCCACTGAGTGTACGTCTTTTCAGCGTGCTGTGCGAAGAAATGGGCAGCGAGTACAAGACTCTGCTTTTCCACACTGAAGTACGCTGGCTGTCGAGGGGAAAGGTGCTCACACGAGTTTTTGAAATGAGGGATGAGATAAAAACATTTCTTCATGACACTGATAATGCCAGTAAAGACCATTTCTATGATTTCAAGTGGCTTGCTCAAGTGGCGTATCTCAGCGATATATTCAGTATCTTGAATAGCCTGAACCTATCACTTCAGGGCCGAAATATCACGATTTTTAATGTTGAGGATAAGATATCAGGATTTCTTAAGAAGACCGAACTGTGGTGCAAACGGCTCGATCGCCGAGAGTTTGACTCTTTCCCAACACTTGATGATTTTCTTCACTCGTCGGAGAAAGAAATCGATGACGTATTATTGGGCATATTTAAAAACCACATCCAAATGCTGCAACAGAACATGAAGAAATACTTTCCAGAGCCGAATGCAACCAAAGAGTGGATTAGGAATCCATTCGCCGCTATCTCCCAAGTTGAAACATTCAACCTTCCAGCTTTTGAGTGTGATATGCTCGTCGACTTAGCGTCTGACGGAGCGCTGAAAGTAGTCTTCAGTGAGAAATCTCTCCATAATTTCTGGGTCCATGTTCGATCCGAATATCCAGAACTATCTGACAGAGCCACCAAACACTTGCTGCCATTCCCGACGACCTATAATTGTGAGTTAGGATTTTCTAATTTAGTAGAAATAAAGAGTAAGAAAAGAAACCGACTGGATGTGGAACCTGACCTACGGCTCAAGCTATCCGTCATCGAGCCGGATATAGATACCTTGGTGAAAGATTGCAAACAATATCATCCCTCTCACTGATATGAAACAATTATTATTATTATTATTATTTTTATAATTTANATTTTATTTTTAAAATTGTGATGAATNTTTTTAAAATTTACCTAAAATTGGTGGTCTGCGTGTGCGCCGAACGCCCATTAAGTGGTCCGCGGATGCCGAAAGTTTGAGAAACACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie25 | toy | 405 | 422 | - | 20.43 | TTTACGCTTCAATGAACC |
| Charlie25 | ewg | 207 | 216 | + | 18.54 | GCGCATGCGC |
| Charlie25 | ewg | 207 | 216 | - | 18.54 | GCGCATGCGC |
| Charlie25 | ZNF320 | 646 | 665 | - | 17.61 | CTGGGGACTAGGGGCAAATG |
| Charlie25 | PAX6 | 409 | 422 | - | 17.40 | TTTACGCTTCAATG |
| Charlie25 | Nrf1 | 205 | 216 | + | 17.40 | TTGCGCATGCGC |
| Charlie25 | PDR3 | 21 | 28 | + | 16.61 | TCCGCGGA |
| Charlie25 | PDR3 | 21 | 28 | - | 16.61 | TCCGCGGA |
| Charlie25 | PDR3 | 2494 | 2501 | + | 16.61 | TCCGCGGA |
| Charlie25 | PDR3 | 2494 | 2501 | - | 16.61 | TCCGCGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
