Charlie10b
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000083 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 242 |
| Kimura value | 22.60 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie10b subfamily (non-autonomous) |
| Comment | - |
| Sequence |
CAGTGCTACTCAAAGTGCCGGTCCGCGACGAGATAAGGAGCTTGCGCCAGAATGTAAATCAACGCACTGCTTCCTTCATCGAGAAAGTCTTGCTACGAAAAAAATGTCAGCTGAACTAAACAGTGTGCTTAGTGACGTAGTTGATTTACATTCTGGCGCAAGCTCCTTATCTCGTCGCGGACCGGTAACAAACAGTTCGCGGACCGGCAGCCGGTCCGCGGACCACACTTTGAGTAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie10b | AP4 | 106 | 115 | + | 12.11 | GTCAGCTGAA |
| Charlie10b | TGA1A | 133 | 139 | - | 11.95 | TACGTCA |
| Charlie10b | PAX2 | 173 | 188 | - | 11.95 | TTACCGGTCCGCGACG |
| Charlie10b | Gata3 | 165 | 172 | + | 11.94 | CCTTATCT |
| Charlie10b | Gata3 | 31 | 38 | - | 11.94 | CCTTATCT |
| Charlie10b | GATA6 | 165 | 172 | + | 11.92 | CCTTATCT |
| Charlie10b | GATA6 | 31 | 38 | - | 11.92 | CCTTATCT |
| Charlie10b | AT5G05790 | 163 | 176 | + | 11.73 | CTCCTTATCTCGTC |
| Charlie10b | AT5G05790 | 27 | 40 | - | 11.73 | CTCCTTATCTCGTC |
| Charlie10b | PAX8 | 15 | 30 | - | 11.71 | CGTCGCGGACCGGCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
