Charlie17b
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000094 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 1204 |
| Kimura value | 26.22 |
| Tau index | 0.9500 |
| Description | hAT-Charlie DNA transposon, Charlie17b subfamily |
| Comment | Charlie17b TSD is 'CTCTAGAG' |
| Sequence |
CAGAGCTTCCCAACCGGTGTGCCGCGAATGGGTTACAGGTGTGCCGNGAGATACTGATCCCCTCAGCCCTCGGGGCGGCCGGGCGGGGCCTGGGGCGGCCGGAGCCCCCGGGCCGGTCGCCTCCGGCCGCGAGCAGCCTCGTCCGGGGCTCCTCGGAGGGCGGCCCGAGCGGAGCGGGGTCTGACGGCGCGCCCCGCGGTCCCCGCAGGCGGCGAGCACGATGAGCGACATCCGGCACTCGCTGCTCCGCCGCGACGCGCTGAGCGCGGCCAAGGAGGTGCTCTACCACCTGGACATCTACTTCAGCAGCCAGCTGCAGAGCGCGCCGCTGCCCATCGTGGACAAGGGGCCCGCGGAGCTGCTGGAGGAGTTCGTGTTCCAGGTGCCCAAGGAGCACGGCGCGCAGCCCAAGGTGCGGCCAGTTGGGGNCGGAGAGGCTGGGAGAGCCGGCAGGGGCTCCTGGCGGGCGCAGCTCCAGGCGGCGGCCCCGAATCTCTGTCTTCACATATATCGGATACTTCTGTCCGTTTGCGGCTGATGTGCCCTTTTAGTGGCGTCCAAGCTAGCTGCAGGGTGACTGCTCTAACAATGCATGCGCGTTCTGCAAATTAGAGCTTCATCATTATTTTGAAATACTTGATATGAAAAAGTTCGATTGGATTCGAAATCCATTCGCATTATCACAAGAAATTTCAACATTACATTTGTCAATGAAAGAAAAGGAAGAGCTGTTAGATTCTTTAAATATAATTTCAACTGTTGTAAATTTTTGAATGGTTGTAAAAATGGTTTTAAATTTTTTATCACCTACTTGTGCGAACAAAGTTTCTCGTCGATGGTGACTATCAAGAATTTGAAGAGATCATCATTAAAAAGTCTTGATCAGGAATTGCGTGTAGCCATTTCAAGCATAAAACCTGATATNAAAAAGTTATGTTCACGGAAGCAAGCTCAAGTTTCTCATTAAAAATTTTGAAAAGATTTTATTTGGAAGTTTTATACAAATTCAATATTTAATATCTTCCCTAATACTTTGTATTTTATTTTTCTTATCATAATTATATAATATAAAGAAAATGTAATGAATTTTTTCACCAAGCCCCATATAGACGCCCCCAAATCCCCTCCAGTTTACCCCAGTGTGCCGTACAAATATTATCATTTTCTATGTGTGCCATGACGTGAAAAAGGTTGGGAAGCACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie17b | TCX6 | 790 | 804 | + | 20.07 | TTTTAAATTTTTTAT |
| Charlie17b | SOL1 | 790 | 804 | - | 19.39 | ATAAAAAATTTAAAA |
| Charlie17b | Klf6-7-like | 74 | 93 | - | 18.47 | CCAGGCCCCGCCCGGCCGCC |
| Charlie17b | TCX6 | 760 | 774 | + | 18.34 | TTGTAAATTTTTGAA |
| Charlie17b | Zm00001d020267 | 478 | 487 | - | 17.95 | GGCCGCCGCC |
| Charlie17b | ZBED4 | 169 | 178 | - | 17.48 | CCCGCTCCGC |
| Charlie17b | ATHB-15 | 617 | 629 | - | 17.40 | AAAATAATGATGA |
| Charlie17b | Zm00001d020595 | 478 | 487 | + | 17.35 | GGCGGCGGCC |
| Charlie17b | TFAP2C | 65 | 77 | + | 17.19 | AGCCCTCGGGGCG |
| Charlie17b | TSO1 | 791 | 805 | - | 17.01 | GATAAAAAATTTAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
