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 | Os05g0437700 | 312 | 319 | + | 14.38 | ACACGTGT |
| Charlie22a | Os05g0437700 | 312 | 319 | - | 14.38 | ACACGTGT |
| Charlie22a | Creb3l2 | 311 | 319 | + | 14.35 | GACACGTGT |
| Charlie22a | ZHD14 | 73 | 83 | - | 14.34 | ATTATTCGATT |
| Charlie22a | BZR2 | 310 | 319 | - | 14.27 | ACACGTGTCC |
| Charlie22a | BEH2 | 311 | 320 | + | 14.26 | GACACGTGTG |
| Charlie22a | BEH4 | 311 | 320 | - | 14.15 | CACACGTGTC |
| Charlie22a | HEY1 | 311 | 320 | - | 14.05 | CACACGTGTC |
| Charlie22a | PDR1 | 21 | 30 | + | 13.92 | TCCCACGGAA |
| Charlie22a | PK24205.1 | 311 | 318 | - | 13.92 | CACGTGTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
