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 | Klf6-7-like | 72 | 91 | - | 18.47 | CCAGGCCCCGCCCGGCCGCC |
| Charlie17a | TFAP2C | 63 | 75 | + | 17.19 | AGCCCTCGGGGCG |
| Charlie17a | TFAP2A | 63 | 75 | + | 16.85 | AGCCCTCGGGGCG |
| Charlie17a | TFAP2C | 63 | 75 | - | 16.69 | CGCCCCGAGGGCT |
| Charlie17a | PATZ1 | 77 | 87 | + | 16.65 | CCGGGCGGGGC |
| Charlie17a | TFAP2B | 63 | 75 | + | 16.49 | AGCCCTCGGGGCG |
| Charlie17a | TFAP2B | 63 | 75 | - | 16.39 | CGCCCCGAGGGCT |
| Charlie17a | TFAP2A | 63 | 75 | - | 16.33 | CGCCCCGAGGGCT |
| Charlie17a | KLF15 | 79 | 86 | - | 16.27 | CCCCGCCC |
| Charlie17a | KLF7 | 79 | 86 | + | 15.72 | GGGCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
