EuthAT-N1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001168 |
|---|---|
| TE superfamily | Tip100 |
| TE class | DNA |
| Species | Eutheria |
| Length | 335 |
| Kimura value | 28.51 |
| Tau index | 0.9795 |
| Description | Ancient hAT DNA transposon from eutherian mammals. |
| Comment | 8 b TSDs. Bit improved (original entry 91% similar to pos 1 -325). Very similar to hAT-N1_MD in marsupials, but a different non-autonomous deletion product. At orthologous sites in all eutheria, but apparently absent in marsupials. |
| Sequence |
CAGAGCCGTAACTAGGGCGGGGCGACCGGGGCTTTGCCCCAGGGCACCGAAATTTAGAGGGCGCAAANATTTTAAATAATGATTTTAAAAGATTGTGCAATTTTAAAATTTGTTACATTTACATGTTGACAGCACATGCACTCCTTCAGCAGCGTAGAAACAACTGAGCTTAGCACCTAGTTAGCAAGAATAATTAGTTAAAATAGGAAGCTACCAGATGGCGCGCATTGTTAATAACACCCATCTGTGAGCCACATCATGAATTACAAAGTTGATTTGAGGGCGCGTTTCNTGCTACTTGCCCCGGGCACCAAAATTGCCAGTTACGGCTCTGC
|
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 |
|---|---|---|---|---|---|---|
| EuthAT-N1 | CEBPA | 92 | 101 | - | 16.80 | ATTGCACAAT |
| EuthAT-N1 | CTCF | 215 | 224 | + | 16.72 | CAGATGGCGC |
| EuthAT-N1 | TFAP2B | 36 | 46 | + | 16.67 | GCCCCAGGGCA |
| EuthAT-N1 | TFAP2C | 36 | 46 | + | 16.61 | GCCCCAGGGCA |
| EuthAT-N1 | ZNF682 | 28 | 38 | - | 16.54 | GGCAAAGCCCC |
| EuthAT-N1 | KLF5 | 14 | 23 | - | 16.29 | GCCCCGCCCT |
| EuthAT-N1 | KLF15 | 15 | 22 | - | 16.27 | CCCCGCCC |
| EuthAT-N1 | TFAP2A | 35 | 45 | + | 16.09 | TGCCCCAGGGC |
| EuthAT-N1 | TFAP2B | 35 | 45 | - | 16.00 | GCCCTGGGGCA |
| EuthAT-N1 | TFAP2C | 35 | 45 | - | 15.93 | GCCCTGGGGCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
