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
|
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 | KLF15 | 81 | 88 | - | 16.27 | CCCCGCCC |
| Charlie17b | CDC5 | 257 | 265 | - | 16.20 | GCTCAGCGC |
| Charlie17b | SOL1 | 964 | 978 | + | 16.19 | TTAAAAATTTTGAAA |
| Charlie17b | ZBED4 | 188 | 197 | + | 15.85 | CGCGCCCCGC |
| Charlie17b | EREB29 | 477 | 486 | - | 15.83 | GCCGCCGCCT |
| Charlie17b | KLF7 | 81 | 88 | + | 15.72 | GGGCGGGG |
| Charlie17b | Klf15 | 73 | 94 | - | 15.72 | CCCAGGCCCCGCCCGGCCGCCC |
| Charlie17b | ERF118 | 478 | 485 | - | 15.56 | CCGCCGCC |
| Charlie17b | KLF1 | 81 | 88 | + | 15.53 | GGGCGGGG |
| Charlie17b | STB3 | 1086 | 1096 | + | 15.48 | ATTTTTTCACC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
