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 | PDR3 | 306 | 313 | + | 16.61 | TCCGCGGA |
| Charlie32a | PDR3 | 306 | 313 | - | 16.61 | TCCGCGGA |
| Charlie32a | HNF1B | 132 | 144 | - | 16.50 | GTAAATTATTAAT |
| Charlie32a | pan | 189 | 202 | - | 16.40 | GCGCTGCTTTTGAT |
| Charlie32a | HNF1A | 132 | 144 | + | 16.17 | ATTAATAATTTAC |
| Charlie32a | O2 | 243 | 254 | - | 15.88 | TGCCACCTCACC |
| Charlie32a | CTCF | 32 | 62 | + | 15.86 | CTGGTGGTCCGCGAGGGTCCTCCAGGTGGTC |
| Charlie32a | ZNF257 | 285 | 294 | - | 14.87 | GAGGAAAGAG |
| Charlie32a | SREBF2 | 170 | 179 | - | 14.51 | ATGAGGTGAT |
| Charlie32a | POU4F3 | 132 | 143 | - | 14.50 | TAAATTATTAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
