EutTc1-N1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001170 |
|---|---|
| TE superfamily | Tc1 |
| TE class | DNA |
| Species | Eutheria |
| Length | 588 |
| Kimura value | 17.33 |
| Tau index | 0.0000 |
| Description | Ancient Mariner/Tc1 DNA transposon from eutherian mammals. |
| Comment | Almost identical to Tc1-N1_MD in marsupials. No evidence for orthologous copies between marsupials and eutheria. A more common related element is EutTc1-N2, that is more or less a hairpin loop of the first 166 bp of EutTc1-N1. |
| Sequence |
CAGGGTGTCCCAAAAGTCTTAGTGCAATTTTAAGCTTTAATAACTTCAGAAGTATAAATGCTACAAACTTACAAAAACATCATTTGAAAGTTTANTTATTTAAATTTCTTTTACACTTATTTAGTTTTGCGAATTTTGAATAGTAAGTTTTAATTTTAATTTTTTNCGTGTGCAACAGTTTCTGGGCGACACTTTCTCAGACCGGTGGATTGGTAGAGNAGNTCCTNNTNCTTGGCCACCTCGGTCACCTGATCTATCTCNATTAGACTNNTTCTTGTGAGGTCACATCAAAANCGTTGTGTATGTATCAAAACCTCGTTCTTTGGATGATCTTAAAGCTAGGATTACAAATGCAATCCTTTCAGTCACTGAGCAGCAGCCGATGAAAGTTTTTGCAAAGTTCGAAAATCGACTAGAGCNATATATAGCACNAGACGGTGGTTATGTTGAATTTTAATAAGAAACATNTCANTATTTTAAAAATTTAAATAATTNNNCTTTCAAATGTCGTTTTTTGTAAGTTTGTAGCATTTATACTTCTGAGGTTATTAAAGCTTAAAACTGCACCAAGACTTTTGGGACACCCTG
|
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-N1 | SREBF2 | 244 | 253 | - | 12.98 | ATCAGGTGAC |
| EutTc1-N1 | SREBF2 | 244 | 253 | + | 12.98 | GTCACCTGAT |
| EutTc1-N1 | Gsx | 142 | 161 | + | 12.79 | AGTAAGTTTTAATTTTAATT |
| EutTc1-N1 | TCX2 | 98 | 112 | - | 12.67 | AAAAGAAATTTAAAT |
| EutTc1-N1 | LBD13 | 435 | 442 | - | 12.67 | ACCACCGT |
| EutTc1-N1 | ZNF416 | 179 | 188 | + | 12.60 | TTTCTGGGCG |
| EutTc1-N1 | cg | 298 | 308 | - | 12.58 | ATACATACACA |
| EutTc1-N1 | POU3F3 | 481 | 493 | - | 12.53 | ATTATTTAAATTT |
| EutTc1-N1 | Hr78 | 278 | 285 | + | 12.46 | TGAGGTCA |
| EutTc1-N1 | ceh-10 | 153 | 163 | + | 12.34 | ATTTTAATTTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
