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 | SFP1 | 222 | 231 | - | 15.11 | AAAAAATTTT |
| Charlie7a | SPL8 | 136 | 151 | - | 14.89 | TATTATGTACATTATA |
| Charlie7a | ZIC4 | 27 | 40 | - | 14.73 | CACCCCCTGGGGTG |
| Charlie7a | SFP1 | 221 | 230 | + | 14.71 | AAAAATTTTT |
| Charlie7a | SFP1 | 221 | 230 | - | 14.71 | AAAAATTTTT |
| Charlie7a | AT2G38090 | 97 | 109 | - | 14.67 | AAAGGATAAAAAT |
| Charlie7a | DOF5.1 | 92 | 110 | - | 14.08 | TAAAGGATAAAAATAAATA |
| Charlie7a | FOXD3 | 183 | 196 | + | 13.94 | TAAATAAATAAATA |
| Charlie7a | AP1 | 114 | 126 | - | 13.79 | CAAAAAATAGAAA |
| Charlie7a | EBF1 | 28 | 38 | + | 13.55 | ACCCCAGGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
