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 | Zm00001d044785 | 165 | 171 | + | 12.54 | CCTTATC |
| Charlie10b | Zm00001d044785 | 32 | 38 | - | 12.54 | CCTTATC |
| Charlie10b | Zm00001d038683 | 219 | 226 | - | 12.47 | GTGGTCCG |
| Charlie10b | NR4A1 | 102 | 109 | + | 12.32 | AAATGTCA |
| Charlie10b | Foxq1 | 115 | 124 | - | 12.30 | ACTGTTTAGT |
| Charlie10b | GATA5 | 165 | 172 | - | 12.27 | AGATAAGG |
| Charlie10b | GATA5 | 31 | 38 | + | 12.27 | AGATAAGG |
| Charlie10b | NR4A2 | 102 | 109 | + | 12.21 | AAATGTCA |
| Charlie10b | Hr38 | 102 | 109 | + | 12.18 | AAATGTCA |
| Charlie10b | AP4 | 106 | 115 | - | 12.14 | TTCAGCTGAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
