Charlie17a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000093 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 217 |
| Kimura value | 27.15 |
| Tau index | 0.9956 |
| Description | hAT-Charlie DNA transposon, Charlie17a subfamily (non-autonomous) |
| Comment | TSD: CTCTAGAG. |
| Sequence |
CAGAGCTTCCCAACCGGTGTGCCGCGAATGGGTTACAGGTGTGCCGAGATATTGATCCCCTCAGCCCTCGGGGCGGCCGGGCGGGGCCTGGGGCGGCCGGAGCCCCCGGGCCGGTCGCCTCCGGCCGCGAGCAGCCTCGTCCGTTTACCCCAGTGTGCCGTACAAATATTATCATTTTCTATGTGTGCCATGACGTGAAAAAGGTTGGGAAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie17a | Klf15 | 71 | 92 | - | 15.72 | CCCAGGCCCCGCCCGGCCGCCC |
| Charlie17a | KLF1 | 79 | 86 | + | 15.53 | GGGCGGGG |
| Charlie17a | TFAP2B | 86 | 94 | - | 15.18 | GCCCCAGGC |
| Charlie17a | TFAP2A | 101 | 111 | + | 14.96 | AGCCCCCGGGC |
| Charlie17a | Zfx | 80 | 89 | + | 14.95 | GGCGGGGCCT |
| Charlie17a | ZNF454 | 79 | 95 | - | 14.85 | CGCCCCAGGCCCCGCCC |
| Charlie17a | ZBTB24 | 83 | 92 | - | 14.60 | CCCAGGCCCC |
| Charlie17a | Ptf1A | 35 | 42 | - | 14.30 | ACACCTGT |
| Charlie17a | luna | 79 | 87 | - | 14.21 | GCCCCGCCC |
| Charlie17a | TfAP-2 | 86 | 94 | - | 14.19 | GCCCCAGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
