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 | POU4F3 | 129 | 140 | + | 13.80 | TGAATTAATAAT |
| Charlie32a | Atf6 | 242 | 254 | + | 13.79 | TGGTGAGGTGGCA |
| Charlie32a | OsbZIP77 | 243 | 254 | - | 13.49 | TGCCACCTCACC |
| Charlie32a | ATHB-20 | 134 | 141 | + | 13.35 | TAATAATT |
| Charlie32a | ATHB-16 | 134 | 141 | + | 13.30 | TAATAATT |
| Charlie32a | sma-4 | 164 | 170 | - | 13.18 | TGTCTGG |
| Charlie32a | OsbZIP42 | 245 | 254 | - | 13.18 | TGCCACCTCA |
| Charlie32a | CTCF | 26 | 56 | - | 13.13 | CTGGAGGACCCTCGCGGACCACCAGCGGTCC |
| Charlie32a | OsbZIP69 | 243 | 254 | + | 13.05 | GGTGAGGTGGCA |
| Charlie32a | ceh-22 | 297 | 305 | - | 13.02 | CCACTTCAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
