Charlie18a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000095 |
|---|---|
| TE superfamily | Charlie |
| TE order | DNA |
| Species | Eutheria |
| Length | 342 |
| Kimura value | 28.38 |
| Tau index | 0.8627 |
| Description | hAT-Charlie DNA transposon, Charlie18a subfamily (non-autonomous) |
| Comment | - |
| Sequence |
CAGTGGTTCCCAAATGCCGGTCCGCGGACCAGTGCCGGTCCGTGACGAAGTTTTCACCGGTCCGCGGCGAAATGAGAAAAATAAGGACAATGTAGTGAGTTTTTCATAAAGCTAAATTTATTCAATTTAAAGGACTGTCCTTTATTCTGAGATTATGTCCTTCCTACTTTTTTGGTGTTAAAATGTCTTTCTTTTATGAAATGATGGTGATAGTAGATGGTAGTTGTTGTTTTTTTAATGTCCTTACTTGGCAAAATAAAAAGTTGGCAACCCTATGTCGGTCCCCAAATTTTTTTTTGAAATTTTACTGGTCCGTGAAATCCAAAAGTCTGGGAACCACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie18a | NAC028 | 244 | 250 | - | 12.76 | CAAGTAA |
| Charlie18a | DREB1C | 275 | 282 | - | 12.74 | ACCGACAT |
| Charlie18a | DOF4.7 | 164 | 172 | + | 12.74 | CTACTTTTT |
| Charlie18a | NAC096 | 244 | 250 | - | 12.72 | CAAGTAA |
| Charlie18a | NAC017 | 244 | 250 | - | 12.69 | CAAGTAA |
| Charlie18a | RAP2-10 | 276 | 282 | - | 12.69 | ACCGACA |
| Charlie18a | NAC057 | 244 | 250 | - | 12.64 | CAAGTAA |
| Charlie18a | DOF3.2 | 251 | 266 | - | 12.64 | CAACTTTTTATTTTGC |
| Charlie18a | DOF3.2 | 164 | 179 | + | 12.62 | CTACTTTTTTGGTGTT |
| Charlie18a | MYB94 | 218 | 227 | - | 12.49 | ACAACTACCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
