Charlie19a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000096 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 386 |
| Kimura value | 31.34 |
| Tau index | 0.8811 |
| Description | hAT-Charlie DNA transposon, Charlie19a subfamily (non-autonomous) |
| Comment | 16 bp TIRs. |
| Sequence |
CAGTGGTTCCCAACCTGGGGTCCCCGGACCCTAGGGGTCCNTGAAGGTAGTAATGGGGGTCTNCGAGCTATTTTCAATATTTCAAAAAGCCTAACGGAAATCGTACATTTACCCGCGATAAGGCTGCACAGGCTAACTAAAACGTCAAGTTTCTTTGCTTTTGGCTGGAATTATATCAACTCAGTGTGGTAACACTGGTTATCTCATGCTGATCAGAAGCTCTGATTGGCAGTTATATATGTCTTTGATTAATAAAAAATGGGGAAAAAATNAATTATTACTTAATAAATGCAGTTTGTTTGGTAGACAAAATCTTTCAAAACATGGGGTCCATGGGGGAAAATAATAAAAGGGGTCCTTGGTGGTGAAAAGGTTGGGAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie19a | ZBTB24 | 22 | 31 | + | 14.12 | CCCCGGACCC |
| Charlie19a | HDG1 | 283 | 292 | + | 14.09 | TAATAAATGC |
| Charlie19a | MYB93 | 298 | 305 | - | 14.00 | TACCAAAC |
| Charlie19a | Gfi1B | 219 | 228 | - | 13.66 | CAATCAGAGC |
| Charlie19a | HDG7 | 283 | 292 | - | 13.45 | GCATTTATTA |
| Charlie19a | ATHB-20 | 273 | 280 | - | 13.35 | TAATAATT |
| Charlie19a | ATHB-16 | 273 | 280 | - | 13.30 | TAATAATT |
| Charlie19a | PLAG1 | 327 | 340 | + | 13.16 | GGGTCCATGGGGGA |
| Charlie19a | YKL222C | 94 | 101 | + | 13.02 | ACGGAAAT |
| Charlie19a | NFYC | 223 | 229 | - | 12.90 | CCAATCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
