Charlie17a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000093 |
|---|---|
| TE superfamily | Charlie |
| TE order | 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 | Adf1 | 122 | 129 | + | 13.66 | CGGCCGCG |
| Charlie17a | TFAP2B | 101 | 111 | - | 13.65 | GCCCGGGGGCT |
| Charlie17a | TfAP-2 | 117 | 125 | + | 13.55 | GCCTCCGGC |
| Charlie17a | KLF2 | 79 | 86 | - | 13.55 | CCCCGCCC |
| Charlie17a | TFAP2C | 117 | 125 | - | 13.54 | GCCGGAGGC |
| Charlie17a | TfAP-2 | 117 | 125 | - | 13.53 | GCCGGAGGC |
| Charlie17a | SNAI2 | 35 | 42 | - | 13.45 | ACACCTGT |
| Charlie17a | esg | 35 | 41 | - | 13.41 | CACCTGT |
| Charlie17a | ZNF320 | 80 | 99 | + | 13.39 | GGCGGGGCCTGGGGCGGCCG |
| Charlie17a | ZNF213 | 82 | 93 | - | 13.32 | CCCCAGGCCCCG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
