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 | ZIC5 | 26 | 40 | - | 12.43 | CACCCCCTGGGGTGC |
| Charlie7a | REI1 | 31 | 37 | - | 12.40 | CCCCTGG |
| Charlie7a | lmd | 29 | 40 | - | 12.36 | CACCCCCTGGGG |
| Charlie7a | MEF2C | 94 | 104 | - | 12.34 | ATAAAAATAAA |
| Charlie7a | RIN | 117 | 126 | + | 12.34 | CTATTTTTTG |
| Charlie7a | fd59A | 183 | 192 | + | 12.32 | TAAATAAATA |
| Charlie7a | fd59A | 187 | 196 | + | 12.32 | TAAATAAATA |
| Charlie7a | FOXB1 | 187 | 197 | + | 12.31 | TAAATAAATAT |
| Charlie7a | AT5G56840 | 97 | 110 | + | 12.29 | ATTTTTATCCTTTA |
| Charlie7a | DF1 | 227 | 234 | - | 12.27 | AGTAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
