Charlie32a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001249 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Theria_mammals |
| Length | 336 |
| Kimura value | 30.45 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie32a subfamily |
| Comment | Present at orthologous sites in all therians, but absent from platypus. |
| Sequence |
CAGCGGTTCTCAAAGTGTGGTCCGGGGACCGCTGGTGGTCCGCGAGGGTCCTCCAGGTGGTCCGCGGGCTGGTCTCTTGTAGTATTAATGTTTATAATATGACAATGTCTATACTTTTGTTTCTGGCATGAATTAATAATTTACTTATGATATTTAATAAAAACCAGACATCACCTCATTGGTGTCTCATCAAAAGCAGCGCCATTCTTCCCATTAATTCTGGTGAGGTTTTTGTTCCTGTTGGTGAGGTGGCAGCGAGAATGGGCAGGATTATGGAGCTGGGGCTCTTTCCTCGGCTGAAGTGGTCCGCGGACCGAAAANGTTTGAGAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie32a | ATHB-13 | 134 | 141 | + | 12.84 | TAATAATT |
| Charlie32a | MYB83 | 239 | 246 | - | 12.74 | CACCAACA |
| Charlie32a | HNF1A | 132 | 144 | - | 12.70 | GTAAATTATTAAT |
| Charlie32a | TCP3 | 25 | 32 | + | 12.67 | GGGACCGC |
| Charlie32a | FoxI-b | 89 | 99 | + | 12.54 | TGTTTATAATA |
| Charlie32a | RVE7L | 148 | 156 | - | 12.53 | TAAATATCA |
| Charlie32a | BZIP3 | 242 | 254 | + | 12.52 | TGGTGAGGTGGCA |
| Charlie32a | Zm00001d038683 | 17 | 24 | + | 12.47 | GTGGTCCG |
| Charlie32a | Zm00001d038683 | 302 | 309 | + | 12.47 | GTGGTCCG |
| Charlie32a | Zm00001d038683 | 35 | 42 | + | 12.47 | GTGGTCCG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
