Charlie16a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000091 |
|---|---|
| TE superfamily | Charlie |
| TE class | 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 | ZNF320 | 256 | 275 | - | 19.54 | GGGGGGTCTGGGGGCATAGC |
| Charlie16a | sug | 268 | 279 | + | 17.72 | GACCCCCCGGGG |
| Charlie16a | opa | 268 | 279 | + | 17.39 | GACCCCCCGGGG |
| Charlie16a | ZIC4 | 268 | 281 | + | 17.21 | GACCCCCCGGGGGG |
| Charlie16a | INSM1 | 260 | 271 | - | 16.40 | GGTCTGGGGGCA |
| Charlie16a | lmd | 268 | 279 | + | 16.20 | GACCCCCCGGGG |
| Charlie16a | GLIS2 | 268 | 281 | + | 16.11 | GACCCCCCGGGGGG |
| Charlie16a | ZIC4 | 270 | 283 | - | 15.79 | TACCCCCCGGGGGG |
| Charlie16a | ZIPIC | 241 | 250 | - | 15.45 | GCAGCCCTGC |
| Charlie16a | lmd | 272 | 283 | - | 15.26 | TACCCCCCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
