Charlie4z
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000026 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 167 |
| Kimura value | 29.90 |
| Tau index | 0.7613 |
| Description | hAT-Charlie DNA transposon, Charlie4z subfamily |
| Comment | 84% ID to MER80B. Not really an internal deletion product, but more like a "Ds" for the Charlie4 "Ac", having almost identical TIRs. |
| Sequence |
CAGGGGTTCTTAACCTGGGGTCCATGGATGGGCTTCAGGGGGTCCGTGAACCCCCTGAAATTGTATGCAAAATTTTGTGCGTATGTGCATTTTTCTGGGGAGAGGGTCCATAGCTTTCATCAGATTCTCAAAGGGGTCCGTGACCCCAAAAAGGTTAAGAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie4z | RXRG | 134 | 147 | - | 13.60 | GGGGTCACGGACCC |
| Charlie4z | SEP3 | 145 | 154 | - | 13.55 | CCTTTTTGGG |
| Charlie4z | NR2F6 | 133 | 147 | + | 13.40 | GGGGTCCGTGACCCC |
| Charlie4z | REI1 | 35 | 41 | - | 13.40 | CCCCTGA |
| Charlie4z | REI1 | 52 | 58 | + | 13.40 | CCCCTGA |
| Charlie4z | NR1H4::RXRA | 134 | 146 | - | 13.27 | GGGTCACGGACCC |
| Charlie4z | THRB | 141 | 157 | + | 13.09 | TGACCCCAAAAAGGTTA |
| Charlie4z | ESR2 | 132 | 146 | - | 13.06 | GGGTCACGGACCCCT |
| Charlie4z | THRB | 141 | 157 | - | 12.91 | TAACCTTTTTGGGGTCA |
| Charlie4z | AP3 | 145 | 157 | + | 12.89 | CCCAAAAAGGTTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
