EutTc1-N2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001231 |
|---|---|
| TE superfamily | Tc1 |
| TE order | DNA |
| Species | Eutheria |
| Length | 378 |
| Kimura value | 20.04 |
| Tau index | 0.0000 |
| Description | TcMar-Tc2 DNA transposon, EutTc1-N2 subfamily |
| Comment | Hairpin with just pos 177-204 as a unique loop (the first/final 168 bp are basically the same as in EutTc1-N1). Present at orthologous sites in all eutheria, absent from marsupials. |
| Sequence |
CAGGGTGTCCCAAAAGTCTTAGTGCAGTTTTAAGCTTTAATAACTTCAGAAGTATAAATGCTACAAACTTACAAAAAACATCATTTGAAAGTTTAATTATTTAAATTTCTTTTACACTTATTTAGTTTTGTGAATTTTGAATAATAAATTTTTAATTTTAATTTTTTTGTTTCAGTCCCTCTGATTGAAGATGGCAAACGTTGACTGAAACAAAAAATTAAAATTAAAAATTTATTATTCAAAATTCACAAAACTAAATAAGTGTAAAAGAAATTTAAATAATTAAACTTTCAAATGATGTTTTTTGTAAGTTTGTAGCATTTATACTTCTGAAGTTATTAAAGCTTAAAACTGCACTAAGACTTTTGGGACACCCTG
|
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 |
|---|---|---|---|---|---|---|
| EutTc1-N2 | Gsx | 144 | 163 | + | 15.58 | ATAAATTTTTAATTTTAATT |
| EutTc1-N2 | Gsx | 216 | 235 | - | 15.58 | ATAAATTTTTAATTTTAATT |
| EutTc1-N2 | TSO1 | 100 | 114 | - | 15.36 | TAAAAGAAATTTAAA |
| EutTc1-N2 | TSO1 | 265 | 279 | + | 15.36 | TAAAAGAAATTTAAA |
| EutTc1-N2 | POU4F3 | 138 | 149 | + | 14.91 | TGAATAATAAAT |
| EutTc1-N2 | POU4F3 | 230 | 241 | - | 14.91 | TGAATAATAAAT |
| EutTc1-N2 | SOL1 | 266 | 280 | + | 14.91 | AAAAGAAATTTAAAT |
| EutTc1-N2 | SOL1 | 99 | 113 | - | 14.91 | AAAAGAAATTTAAAT |
| EutTc1-N2 | WRKY6 | 199 | 206 | + | 14.89 | CGTTGACT |
| EutTc1-N2 | SOL1 | 128 | 142 | - | 14.84 | ATTCAAAATTCACAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
