Charlie16a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000091 |
|---|---|
| TE superfamily | Charlie |
| TE order | DNA |
| Species | Eutheria |
| Length | 342 |
| Kimura value | 28.92 |
| Tau index | 0.9515 |
| Description | hAT-Charlie DNA transposon, Charlie16a subfamily (non-autonomous) |
| Comment | 16 bp TIRs. |
| Sequence |
CAGTGCTTCTCAAACTGGGGTATGCGTACCCCTGGGGGTATGCAGTGGCAGAGGGGCAGTACGAAGCCACAGGATAAACATGGCGCATCTTCCTGGAGCATCAATTTTACTCGAAGATTTGGGGGGGAAACACATTATTTTTATATTAAAACAAACACGGATATATTATGGAGTAGAATGCAAAATTCGCATGAATTTTTAAGATAAAACANGAGACTTCAAAGAAATTTCGCGCTTGTGGCAGGGCTGCTTCGGGCTATGCCCCCAGACCCCCCGGGGGGTACGCGTTCACTCTCCTCTGCCGTTAGGGGTACTTCGGGTGGAAAAGTTTGAGAAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie16a | E2FD | 116 | 130 | + | 1.75 | GATTTGGGGGGGAAA |
| Charlie16a | E2FE | 116 | 130 | + | 1.75 | GATTTGGGGGGGAAA |
| Charlie16a | GLI3 | 267 | 281 | + | 1.15 | AGACCCCCCGGGGGG |
| Charlie16a | E2FD | 117 | 131 | + | 0.28 | ATTTGGGGGGGAAAC |
| Charlie16a | E2FE | 117 | 131 | + | 0.28 | ATTTGGGGGGGAAAC |
| Charlie16a | ZNF410 | 161 | 176 | - | -0.04 | CTACTCCATAATATAT |
| Charlie16a | E2F7 | 118 | 131 | - | -0.41 | GTTTCCCCCCCAAA |
| Charlie16a | ZAP1 | 25 | 39 | - | -5.03 | ACCCCCAGGGGTACG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
