Charlie21a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000098 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 1213 |
| Kimura value | 27.87 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie21a subfamily (non-autonomous) |
| Comment | 15bp TIRs. |
| Sequence |
CANCATTTCCCAACCGGTGGTTTGTGAACCCCCAGGGGTTCGCGAAGGTGTTCCAGGGGGTTCACGTCGTTAAAGGCGGTAATGGCATCTGTTTCAATTTCTATTTTTAAAAATCAATAAATAAAATAATTATTTAAATATTTTCCCTTTAAAACGGAACAGTTTGAGAGCCTCCGAGTGCGTATCGAGTGAGCATGCGTGGCGGTTAGTGGAGATCAGATGAGCGTGCTCATGACTCAGTCACTCAGTCGGTTTATCACTCAGCTGAACACCGCTAGCCGCCGTGGTGGTTTTGACCATTATACAGTTTTAAATTGTTTTTATTCTTAGTCATATATTGTTTAATTTATACCCATAATGGACCATTGGTTAAAGACAGGAAGCATAAGGAACACTGATGTTGAAATACAACAAGTTAATGAGGAGCATAAAAATGATAATAATTCTGCAAATTCGCCTCAAGATGATCTTCACCAGATCCGTAAGTTGCATTCATCTGATCAAAATTCTTATATAGCACATCAAGATGTCTCTAGTACTTCAAAAACCAATGTTAAAAAGAGAAAATATAGTGACGATTATATCCAATTTGGCTTTTCATTTATTGGGAATAAAGACTATCCACACCCGCAATGTGTTATTTGCGGAGAAGTGCTTGCAAATAGCAGCCTGAAACCTTCTCTCTTATCTCATCATTTAGAAACAAAACACGAAAATTATAAAAATAAACCAGTTGATTTTTTAAAGCGCAAAATGCAAGAATTCCAAACATCAGGTCATGAAAGCAGTTTTTGTCTATTTTTGATGCCGTAACACGTAGTTAAATTTCAATCTACATTTTAATATACATTCGGTCCCCAAACCAAACACGATATAATATGTCATTTTNAAATTTATTTGTCGACAAATCATGCTTTTTCTTACATAATTAATTTAAAGTAAATTAAACAGCATGTGTCACTTGTTAAATGGGAAAAAGTCAAAATTTGTCTTTATATATTATGAATATTATTAAAGATTGTATTAAAATGAACTTTATAATACAATCTTTAATAATATACTGATCTAAAATAAAATATTTTACTTAAAATCACTTCTTTATCATATACCATACAAAAATGACGAAATGATTTTNAAAATTCCTAAGGGGGTTCGCGAGATTATATATTACTGTGAAAGGGGTTCGCGAGTCAAAAAAGGTTGGGAAACGCTG
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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 |
|---|---|---|---|---|---|---|
| Charlie21a | AT4G12670 | 704 | 732 | + | -17.65 | CAAAACACGAAAATTATAAAAATAAACCA |
| Charlie21a | BPC5 | 232 | 261 | - | -44.95 | AGTGATAAACCGACTGAGTGACTGAGTCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
