Charlie22a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000099 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 491 |
| Kimura value | 30.03 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie22a subfamily (non-autonomous) |
| Comment | 16 bp TIR; TIRs identical to MER5A. |
| Sequence |
CAGTGGTTCTCAAACTATGCTCCCACGGAACACTGGTGTTCCGCGAGCTGGACCGAGGTGTTCCGCCGCTAAAATCGAATAATGGCAGTCTTTTCCCAATTCGCAGAAAAAATTAAGTTAATGGATAGAATTTTCTCAATTTTAAGTTTTTCTCCCATAAATTTTTCTTAAACCTTTGGCGCCTGCTACCGCTTGTCTGCTAGCGAGCGCTAGCAGATGACAAAACGAATGAACAAGTAGCAAATGAATATTAACGGAAAAACTCGGAAACAGCCGATCATGCTTAGTTCGACAGCTTGTTTTTTTCATGGACACGTGTGCTCGTGGTTGTGATTTTATATTGCATACATATAATATAGTCATATTTTCTGCTAGTAAAATTGTTCCTAGTTCGTATGATGGAATTAAATATATCAGTATTTCATGGTGTTCCGCAAAGAGCACCATGACTTCCAGGTGCTCTGCCACCTGAACAAGTTTGAGAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie22a | NR3C2 | 50 | 64 | + | 4.49 | GGACCGAGGTGTTCC |
| Charlie22a | SOX21 | 78 | 92 | + | 4.24 | AATAATGGCAGTCTT |
| Charlie22a | TFAP4::FLI1 | 263 | 276 | + | 2.28 | CTCGGAAACAGCCG |
| Charlie22a | Sox21b | 78 | 92 | - | -7.54 | AAGACTGCCATTATT |
| Charlie22a | Sox21b | 407 | 421 | + | -9.33 | AAATATATCAGTATT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
