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 | KLF10 | 14 | 22 | + | 14.15 | AGGGCGGGG |
| EuthAT-N1 | Spps | 13 | 23 | - | 14.02 | GCCCCGCCCTA |
| EuthAT-N1 | TBX19 | 235 | 251 | + | 13.99 | TAACACCCATCTGTGAG |
| EuthAT-N1 | ZHD9 | 191 | 205 | - | 13.96 | TATTTTAACTAATTA |
| EuthAT-N1 | pdm3 | 190 | 197 | - | 13.86 | CTAATTAT |
| EuthAT-N1 | lin-32 | 241 | 248 | - | 13.81 | ACAGATGG |
| EuthAT-N1 | FUS3 | 134 | 140 | + | 13.75 | ACATGCA |
| EuthAT-N1 | EBF1 | 36 | 46 | + | 13.71 | GCCCCAGGGCA |
| EuthAT-N1 | DMRTC2 | 108 | 118 | + | 13.70 | ATTTGTTACAT |
| EuthAT-N1 | MEIS2 | 126 | 133 | + | 13.66 | TTGACAGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
