Charlie18a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000095 |
|---|---|
| TE superfamily | Charlie |
| TE class | 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 | NFIC | 247 | 253 | + | 13.37 | CTTGGCA |
| Charlie18a | DREB1B | 275 | 282 | - | 13.37 | ACCGACAT |
| Charlie18a | Zfp809 | 328 | 336 | - | 13.36 | TTCCCAGAC |
| Charlie18a | DREB1A | 275 | 282 | + | 13.21 | ATGTCGGT |
| Charlie18a | DOF1.7 | 162 | 172 | - | 13.17 | AAAAAGTAGGA |
| Charlie18a | DOF4.7 | 258 | 266 | - | 12.90 | CAACTTTTT |
| Charlie18a | RIM101 | 247 | 253 | - | 12.82 | TGCCAAG |
| Charlie18a | SEP3 | 166 | 175 | + | 12.82 | ACTTTTTTGG |
| Charlie18a | FOXD2 | 228 | 238 | - | 12.81 | TTAAAAAAACA |
| Charlie18a | TCX3 | 293 | 304 | - | 12.79 | AATTTCAAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
