Charlie19a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000096 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 386 |
| Kimura value | 31.34 |
| Tau index | 0.8811 |
| Description | hAT-Charlie DNA transposon, Charlie19a subfamily (non-autonomous) |
| Comment | 16 bp TIRs. |
| Sequence |
CAGTGGTTCCCAACCTGGGGTCCCCGGACCCTAGGGGTCCNTGAAGGTAGTAATGGGGGTCTNCGAGCTATTTTCAATATTTCAAAAAGCCTAACGGAAATCGTACATTTACCCGCGATAAGGCTGCACAGGCTAACTAAAACGTCAAGTTTCTTTGCTTTTGGCTGGAATTATATCAACTCAGTGTGGTAACACTGGTTATCTCATGCTGATCAGAAGCTCTGATTGGCAGTTATATATGTCTTTGATTAATAAAAAATGGGGAAAAAATNAATTATTACTTAATAAATGCAGTTTGTTTGGTAGACAAAATCTTTCAAAACATGGGGTCCATGGGGGAAAATAATAAAAGGGGTCCTTGGTGGTGAAAAGGTTGGGAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie19a | NHP10 | 21 | 28 | - | 12.32 | TCCGGGGA |
| Charlie19a | MYB51 | 297 | 307 | - | 12.28 | TCTACCAAACA |
| Charlie19a | E2F8 | 110 | 118 | + | 12.19 | TACCCGCGA |
| Charlie19a | ZNF524 | 23 | 31 | + | 12.17 | CCCGGACCC |
| Charlie19a | MYB10 | 297 | 306 | - | 12.15 | CTACCAAACA |
| Charlie19a | mef-2 | 68 | 74 | - | 12.10 | AAAATAG |
| Charlie19a | nfya-1 | 222 | 231 | - | 12.09 | TGCCAATCAG |
| Charlie19a | MCM1 | 7 | 18 | - | 12.06 | CCAGGTTGGGAA |
| Charlie19a | GFI1 | 218 | 228 | - | 12.04 | CAATCAGAGCT |
| Charlie19a | OSR2 | 213 | 220 | + | 12.04 | TCAGAAGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
