Charlie10a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000082 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 280 |
| Kimura value | 23.06 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie10a subfamily (non-autonomous) |
| Comment | - |
| Sequence |
CAGTGCTACTCAAAGTGTGGCCCATGGACCGGTGCCAGTCCGCGAACTGTTTGTTACCGGTCCGCGACGAGATAAGGAGCTTGCGCCAGAATGTAAATCAACGCACTGCTTCCTTCATCGAGAAAGTCTTGCTACGAAAAAAATGTCAGCTGAACTAAACAGTGTGCTTAGTGACGTAGTTGATTTACATTCTGGCGCAAGCTCCTTATCTCGTCGCGGACCGGTAACAAACAGTTCGCGGACCGGCACTGGTCCGCGGACCACACTTTGAGTAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie10a | PDR3 | 253 | 260 | + | 16.61 | TCCGCGGA |
| Charlie10a | PDR3 | 253 | 260 | - | 16.61 | TCCGCGGA |
| Charlie10a | IXR1 | 104 | 118 | - | 15.21 | ATGAAGGAAGCAGTG |
| Charlie10a | NFIX | 24 | 37 | + | 14.32 | ATGGACCGGTGCCA |
| Charlie10a | nit-4 | 253 | 259 | + | 14.25 | TCCGCGG |
| Charlie10a | nit-4 | 254 | 260 | - | 14.25 | TCCGCGG |
| Charlie10a | GATA4 | 204 | 211 | + | 14.20 | CCTTATCT |
| Charlie10a | GATA4 | 70 | 77 | - | 14.20 | CCTTATCT |
| Charlie10a | nhr-6 | 141 | 148 | + | 13.81 | AAATGTCA |
| Charlie10a | SRM1 | 203 | 211 | - | 13.66 | AGATAAGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
