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 | IXR1 | 260 | 274 | + | 1.11 | TAACAGGGTGCAGTT |
| Charlie25 | SOX21 | 2344 | 2358 | - | 1.04 | AGGGATGATATTGTT |
| Charlie25 | CG4360 | 885 | 897 | + | -1.08 | ATAGCAAAAACAG |
| Charlie25 | TRP2 | 2214 | 2234 | - | -1.27 | ATTAGAAAATCCTAACTCACA |
| Charlie25 | BPC6 | 2237 | 2257 | - | -1.28 | TTCTTACTCTTTATTTCTACT |
| Charlie25 | BPC1 | 2241 | 2264 | + | -1.56 | GAAATAAAGAGTAAGAAAAGAAAC |
| Charlie25 | BPC6 | 1884 | 1904 | - | -1.99 | ATCGATTTCTTTCTCCGACGA |
| Charlie25 | RARA | 1735 | 1752 | - | -4.85 | GAAGTGATAGGTTCAGGC |
| Charlie25 | ZSCAN16 | 1298 | 1315 | + | -21.81 | CAGTACTGACGGAGCACC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
