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 | CRF2 | 478 | 485 | - | 15.20 | CCGCCGCC |
| Charlie17b | TFAP2B | 88 | 96 | - | 15.18 | GCCCCAGGC |
| Charlie17b | SOL1 | 760 | 774 | - | 15.10 | TTCAAAAATTTACAA |
| Charlie17b | REV | 615 | 628 | + | 15.08 | CTTCATCATTATTT |
| Charlie17b | FEZF2 | 435 | 442 | - | 15.03 | CCCAGCCT |
| Charlie17b | TFAP2A | 103 | 113 | + | 14.96 | AGCCCCCGGGC |
| Charlie17b | Zfx | 82 | 91 | + | 14.95 | GGCGGGGCCT |
| Charlie17b | ERF082 | 477 | 485 | - | 14.88 | CCGCCGCCT |
| Charlie17b | ABF1 | 830 | 843 | + | 14.86 | TCGTCGATGGTGAC |
| Charlie17b | Dmrt1 | 1030 | 1038 | - | 14.85 | TACAAAGTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
