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 | NFIB | 23 | 39 | - | 12.19 | ACTGGCACCGGTCCATG |
| Charlie10a | Hr38 | 141 | 148 | + | 12.18 | AAATGTCA |
| Charlie10a | AP4 | 145 | 154 | - | 12.14 | TTCAGCTGAC |
| Charlie10a | AP4 | 145 | 154 | + | 12.11 | GTCAGCTGAA |
| Charlie10a | TGA1A | 172 | 178 | - | 11.95 | TACGTCA |
| Charlie10a | PAX2 | 212 | 227 | - | 11.95 | TTACCGGTCCGCGACG |
| Charlie10a | PAX2 | 54 | 69 | + | 11.95 | TTACCGGTCCGCGACG |
| Charlie10a | Gata3 | 204 | 211 | + | 11.94 | CCTTATCT |
| Charlie10a | Gata3 | 70 | 77 | - | 11.94 | CCTTATCT |
| Charlie10a | GATA6 | 204 | 211 | + | 11.92 | CCTTATCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
