Charlie15a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000089 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 224 |
| Kimura value | 29.28 |
| Tau index | 0.7845 |
| Description | hAT-Charlie DNA transposon, Charlie15a subfamily (non-autonomous) |
| Comment | 8bp Charlie-type TSDs; 16 bp TIRs. |
| Sequence |
CAGTGGTTTTCAAACTGTGTTCCGCGGAGCCCTAGGGGTTCCGCGGAGGTGCCTCGGGGGCTGCTGGGNGGGNNGTGAGGCTGGGCGGGCGGGGCTCTGGGCCTCCCACCCCCGCTTCAACCAGAGCAGCTCCGCTTTTATCTGTTTTATATATTGGGCTTCCGCGTAAGATTTCATTTGAAGAAAGGGTTCTGCTGCTTAAAAAAAAAGTTTGAAAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie15a | PATZ1 | 85 | 95 | + | 17.57 | GCGGGCGGGGC |
| Charlie15a | PDR3 | 21 | 28 | + | 16.61 | TCCGCGGA |
| Charlie15a | PDR3 | 21 | 28 | - | 16.61 | TCCGCGGA |
| Charlie15a | PDR3 | 40 | 47 | + | 16.61 | TCCGCGGA |
| Charlie15a | PDR3 | 40 | 47 | - | 16.61 | TCCGCGGA |
| Charlie15a | KLF15 | 87 | 94 | - | 16.27 | CCCCGCCC |
| Charlie15a | TFAP2B | 50 | 62 | - | 16.26 | AGCCCCCGAGGCA |
| Charlie15a | klu | 106 | 116 | + | 16.03 | CCACCCCCGCT |
| Charlie15a | TFAP2C | 50 | 62 | - | 15.90 | AGCCCCCGAGGCA |
| Charlie15a | TFAP2C | 50 | 62 | + | 15.78 | TGCCTCGGGGGCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
