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 | PAX8 | 32 | 47 | - | 17.15 | CGTCACGGACCGGCAC |
| Charlie18a | PDR3 | 21 | 28 | + | 16.61 | TCCGCGGA |
| Charlie18a | PDR3 | 21 | 28 | - | 16.61 | TCCGCGGA |
| Charlie18a | FOXE1 | 227 | 238 | - | 16.40 | TTAAAAAAACAA |
| Charlie18a | PAX2 | 32 | 47 | + | 15.58 | GTGCCGGTCCGTGACG |
| Charlie18a | nit-4 | 21 | 27 | + | 14.25 | TCCGCGG |
| Charlie18a | nit-4 | 22 | 28 | - | 14.25 | TCCGCGG |
| Charlie18a | nit-4 | 61 | 67 | + | 14.25 | TCCGCGG |
| Charlie18a | MYB30 | 216 | 227 | - | 14.16 | ACAACTACCATC |
| Charlie18a | sv | 32 | 47 | + | 14.10 | GTGCCGGTCCGTGACG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
