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 | FOXH1 | 1378 | 1385 | + | 14.67 | AATCCACA |
| Charlie25 | MYB107 | 2177 | 2184 | + | 14.64 | CACCAAAC |
| Charlie25 | tin | 1680 | 1688 | + | 14.64 | TTCAAGTGG |
| Charlie25 | ZNF768 | 748 | 756 | + | 14.62 | ACCTCTCTG |
| Charlie25 | vnd | 1679 | 1687 | + | 14.54 | TTTCAAGTG |
| Charlie25 | AT5G56840 | 1780 | 1793 | - | 14.53 | TATCTTATCCTCAA |
| Charlie25 | DIV1 | 1783 | 1793 | + | 14.52 | AGGATAAGATA |
| Charlie25 | Hsf | 774 | 781 | + | 14.43 | TTCCAGAA |
| Charlie25 | bigmax | 1066 | 1074 | + | 14.43 | TATCACGTG |
| Charlie25 | AZF1 | 576 | 584 | + | 14.41 | AAAAAGAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
