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 | PDR3 | 215 | 222 | + | 16.61 | TCCGCGGA |
| Charlie10b | PDR3 | 215 | 222 | - | 16.61 | TCCGCGGA |
| Charlie10b | IXR1 | 65 | 79 | - | 15.21 | ATGAAGGAAGCAGTG |
| Charlie10b | nit-4 | 215 | 221 | + | 14.25 | TCCGCGG |
| Charlie10b | nit-4 | 216 | 222 | - | 14.25 | TCCGCGG |
| Charlie10b | GATA4 | 165 | 172 | + | 14.20 | CCTTATCT |
| Charlie10b | GATA4 | 31 | 38 | - | 14.20 | CCTTATCT |
| Charlie10b | nhr-6 | 102 | 109 | + | 13.81 | AAATGTCA |
| Charlie10b | SRM1 | 164 | 172 | - | 13.66 | AGATAAGGA |
| Charlie10b | SRM1 | 31 | 39 | + | 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.
