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 | nit-4 | 41 | 47 | - | 14.25 | TCCGCGG |
| Charlie15a | luna | 87 | 95 | - | 14.21 | GCCCCGCCC |
| Charlie15a | Klf6-7-like | 76 | 95 | - | 14.12 | GCCCCGCCCGCCCAGCCTCA |
| Charlie15a | TFAP2B | 50 | 60 | - | 14.07 | CCCCCGAGGCA |
| Charlie15a | ZNF148 | 85 | 94 | - | 14.04 | CCCCGCCCGC |
| Charlie15a | EGR4 | 82 | 92 | - | 13.95 | CCGCCCGCCCA |
| Charlie15a | TFAP2C | 50 | 60 | - | 13.78 | CCCCCGAGGCA |
| Charlie15a | ZNF384 | 201 | 208 | + | 13.57 | AAAAAAAA |
| Charlie15a | ZNF384 | 202 | 209 | + | 13.57 | AAAAAAAA |
| Charlie15a | KLF2 | 87 | 94 | - | 13.55 | CCCCGCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
