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 | CG7928 | 60 | 71 | + | 7.93 | CTCAGCCCTCGG |
| Charlie17a | SP4 | 78 | 86 | + | 7.69 | CGGGCGGGG |
| Charlie17a | PLAG1 | 56 | 69 | - | 7.17 | GAGGGCTGAGGGGA |
| Charlie17a | PK02532.1 | 47 | 54 | - | 6.54 | CAATATCT |
| Charlie17a | ATF6 | 188 | 200 | + | 6.39 | CCATGACGTGAAA |
| Charlie17a | ZNF460 | 68 | 83 | - | 5.72 | CGCCCGGCCGCCCCGA |
| Charlie17a | ZSCAN4 | 175 | 189 | - | 4.67 | GGCACACATAGAAAA |
| Charlie17a | TFAP4::FLI1 | 28 | 41 | + | 1.98 | ATGGGTTACAGGTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
