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 | CREB3L1 | 242 | 254 | - | 14.48 | TGCCACCTCACCA |
| Charlie32a | POU4F1 | 132 | 143 | - | 14.46 | TAAATTATTAAT |
| Charlie32a | IKZF1 | 235 | 242 | - | 14.34 | AACAGGAA |
| Charlie32a | SREBF1 | 170 | 179 | + | 14.30 | ATCACCTCAT |
| Charlie32a | nit-4 | 306 | 312 | + | 14.25 | TCCGCGG |
| Charlie32a | nit-4 | 307 | 313 | - | 14.25 | TCCGCGG |
| Charlie32a | nit-4 | 61 | 67 | + | 14.25 | TCCGCGG |
| Charlie32a | Foxq1 | 87 | 96 | + | 14.15 | AATGTTTATA |
| Charlie32a | ARALYDRAFT_897773 | 24 | 32 | + | 13.97 | GGGGACCGC |
| Charlie32a | POU4F1 | 129 | 140 | + | 13.87 | TGAATTAATAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
