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 | ZNF558 | 97 | 125 | - | 7.38 | ATCTGATGAAAGCTATGGACCCTCTCCCC |
| Charlie4z | NR2F6 | 39 | 53 | - | 7.33 | GGGTTCACGGACCCC |
| Charlie4z | NR2F6 | 39 | 53 | + | 6.90 | GGGGTCCGTGAACCC |
| Charlie4z | POU2F2 | 63 | 75 | + | 6.85 | GTATGCAAAATTT |
| Charlie4z | ZNF16 | 13 | 33 | + | 3.76 | ACCTGGGGTCCATGGATGGGC |
| Charlie4z | NFKB1 | 44 | 56 | - | 2.35 | AGGGGGTTCACGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
