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 | FOXD2 | 147 | 157 | + | 15.02 | TAAAACAAACA |
| Charlie16a | sug | 272 | 283 | - | 14.82 | TACCCCCCGGGG |
| Charlie16a | GLIS2 | 270 | 283 | - | 14.75 | TACCCCCCGGGGGG |
| Charlie16a | ZIC1 | 268 | 281 | + | 14.38 | GACCCCCCGGGGGG |
| Charlie16a | opa | 272 | 283 | - | 14.21 | TACCCCCCGGGG |
| Charlie16a | phol | 76 | 85 | - | 13.98 | CGCCATGTTT |
| Charlie16a | TCF7L2 | 216 | 224 | + | 13.91 | ACTTCAAAG |
| Charlie16a | l(3)neo38 | 121 | 127 | - | 13.75 | CCCCCCC |
| Charlie16a | ZIC5 | 268 | 282 | + | 13.68 | GACCCCCCGGGGGGT |
| Charlie16a | EBF1 | 28 | 38 | - | 13.49 | CCCCCAGGGGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
