Charlie16a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000091 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 342 |
| Kimura value | 28.92 |
| Tau index | 0.9515 |
| Description | hAT-Charlie DNA transposon, Charlie16a subfamily (non-autonomous) |
| Comment | 16 bp TIRs. |
| Sequence |
CAGTGCTTCTCAAACTGGGGTATGCGTACCCCTGGGGGTATGCAGTGGCAGAGGGGCAGTACGAAGCCACAGGATAAACATGGCGCATCTTCCTGGAGCATCAATTTTACTCGAAGATTTGGGGGGGAAACACATTATTTTTATATTAAAACAAACACGGATATATTATGGAGTAGAATGCAAAATTCGCATGAATTTTTAAGATAAAACANGAGACTTCAAAGAAATTTCGCGCTTGTGGCAGGGCTGCTTCGGGCTATGCCCCCAGACCCCCCGGGGGGTACGCGTTCACTCTCCTCTGCCGTTAGGGGTACTTCGGGTGGAAAAGTTTGAGAAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie16a | AT2G38090 | 69 | 81 | + | 13.48 | ACAGGATAAACAT |
| Charlie16a | FOXE1 | 147 | 158 | + | 13.33 | TAAAACAAACAC |
| Charlie16a | TFAP2C | 269 | 281 | + | 13.31 | ACCCCCCGGGGGG |
| Charlie16a | TFAP2C | 270 | 282 | - | 13.31 | ACCCCCCGGGGGG |
| Charlie16a | ZNF740 | 118 | 127 | - | 13.30 | CCCCCCCAAA |
| Charlie16a | TFAP2A | 269 | 281 | + | 13.30 | ACCCCCCGGGGGG |
| Charlie16a | TFAP2A | 270 | 282 | - | 13.30 | ACCCCCCGGGGGG |
| Charlie16a | NR2C2 | 260 | 273 | - | 13.23 | GGGGTCTGGGGGCA |
| Charlie16a | Hmga1 | 137 | 144 | + | 13.22 | ATTTTTAT |
| Charlie16a | RPH1 | 305 | 311 | - | 13.07 | CCCCTAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
