Charlie7a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000106 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 272 |
| Kimura value | 27.68 |
| Tau index | 0.9720 |
| Description | hAT-Charlie DNA transposon, Charlie7a subfamily (non-autonomous) |
| Comment | Internal deletion product of Charlie7. |
| Sequence |
CAGTGGTCTCCAAAGTGGGGTGCGTGCACCCCAGGGGGTGTGCAAGACGATCCACTGGGGTGCGGGAAGAAAATATTAGAACTTCTATTTATATTTATTTTTATCCTTTAAAATTTCTATTTTTTGTGTATGTTTTATAATGTACATAATATATTAGTACAGTAGTACATGTATATAATTTATAAATAAATAAATATACATATATTGGGGGTGCATGCTCAAAAATTTTTTACTGATAGGGGTGCATGATCAAAAAAGTTTGGAGACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie7a | MEF2D | 94 | 105 | - | 6.85 | GATAAAAATAAA |
| Charlie7a | MEF2B | 94 | 105 | - | 5.67 | GATAAAAATAAA |
| Charlie7a | RLM1 | 83 | 96 | + | 5.44 | TTCTATTTATATTT |
| Charlie7a | GLIS3 | 27 | 40 | - | 4.18 | CACCCCCTGGGGTG |
| Charlie7a | KLF13 | 29 | 45 | - | 3.44 | TTGCACACCCCCTGGGG |
| Charlie7a | ZNF558 | 176 | 204 | + | 1.67 | TAATTTATAAATAAATAAATATACATATA |
| Charlie7a | ZNF558 | 84 | 112 | - | 0.83 | TTTAAAGGATAAAAATAAATATAAATAGA |
| Charlie7a | THI2 | 68 | 82 | + | 0.41 | AGAAAATATTAGAAC |
| Charlie7a | TRP1 | 121 | 141 | - | -5.91 | ATTATAAAACATACACAAAAA |
| Charlie7a | GLIS1 | 11 | 25 | - | -9.36 | ACGCACCCCACTTTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
