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 | SOL1 | 476 | 490 | + | 21.78 | TTTAAAAATTTAAAT |
| EutTc1-N1 | TCX6 | 476 | 490 | - | 20.94 | ATTTAAATTTTTAAA |
| EutTc1-N1 | TSO1 | 475 | 489 | + | 20.62 | TTTTAAAAATTTAAA |
| EutTc1-N1 | TCX2 | 476 | 490 | + | 18.33 | TTTAAAAATTTAAAT |
| EutTc1-N1 | TCX6 | 475 | 489 | + | 17.85 | TTTTAAAAATTTAAA |
| EutTc1-N1 | SOL1 | 475 | 489 | - | 16.31 | TTTAAATTTTTAAAA |
| EutTc1-N1 | SREBF1 | 244 | 253 | + | 15.78 | GTCACCTGAT |
| EutTc1-N1 | TSO1 | 99 | 113 | - | 15.36 | TAAAAGAAATTTAAA |
| EutTc1-N1 | GRF4 | 373 | 380 | + | 15.23 | GCAGCAGC |
| EutTc1-N1 | SOL1 | 98 | 112 | - | 14.91 | AAAAGAAATTTAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
