Tigger19a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000835 |
|---|---|
| TE superfamily | Tigger |
| TE class | DNA |
| Species | Theria_mammals |
| Length | 323 |
| Kimura value | 34.37 |
| Tau index | 0.9914 |
| Description | TcMar-Tigger DNA transposon, Tigger19a subfamily (non-autonomous) |
| Comment | Tigger19a is an older Tigger element, with "TA" TSDs. The termini are similar to autonomous SMAR15 Tigger element in the flatworm Schmidtea. There are about 2000 recognizable on average 35% substituted copies in the reconstructed laurasiatherian genome. |
| Sequence |
CAGTCAACTCTCGATTATCCGCGTGTGGATTATCCACTTTGTGGATTATCCGCGGCGAATTTTAAATCCCAGGCCGGCTTCCCCTCGCCACCCAGCATGCTTCCGGGCCGCTTCCTCCCGCCATCAGTTGGTGTGTGCTCAGGGAATGCAAACTAATTTTAATATTAGCCTAAGCAAAACATAATTAGGAAGGTAAATCTGCTGCGAAAAAATCACATAATGCATTCCAAAGCCAAATANAAATGATTTTTGGATTATCCGCTGTTTTGGATTATCCGCGCCACTGCTCCCCTCCATTAGCGCGGATAATCGAGAGTTGACTG
|
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 |
|---|---|---|---|---|---|---|
| Tigger19a | RPN4 | 86 | 92 | - | 13.80 | GGTGGCG |
| Tigger19a | Ets65A | 99 | 106 | - | 13.77 | CCGGAAGC |
| Tigger19a | AT1G74840 | 30 | 38 | - | 13.59 | AGTGGATAA |
| Tigger19a | YY2 | 118 | 124 | - | 13.54 | ATGGCGG |
| Tigger19a | ZNF213 | 67 | 78 | + | 13.35 | TCCCAGGCCGGC |
| Tigger19a | ZHD9 | 182 | 196 | - | 13.34 | TTACCTTCCTAATTA |
| Tigger19a | UGA3 | 116 | 122 | - | 13.34 | GGCGGGA |
| Tigger19a | ELK4 | 98 | 106 | + | 13.27 | TGCTTCCGG |
| Tigger19a | E2F6 | 115 | 122 | - | 13.22 | GGCGGGAG |
| Tigger19a | ZNF257 | 82 | 91 | - | 13.16 | GTGGCGAGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
