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 | CTCF | 55 | 64 | + | 14.60 | TAGAGGGCGC |
| EuthAT-N1 | NEUROD1 | 241 | 248 | - | 14.58 | ACAGATGG |
| EuthAT-N1 | CEBPD | 93 | 100 | - | 14.47 | TTGCACAA |
| EuthAT-N1 | REV | 74 | 87 | - | 14.46 | TAAAATCATTATTT |
| EuthAT-N1 | TBXT | 235 | 250 | - | 14.44 | TCACAGATGGGTGTTA |
| EuthAT-N1 | DMRTA1 | 110 | 119 | + | 14.38 | TTGTTACATT |
| EuthAT-N1 | luna | 15 | 23 | - | 14.21 | GCCCCGCCC |
| EuthAT-N1 | SOL1 | 101 | 115 | - | 14.21 | TAACAAATTTTAAAA |
| EuthAT-N1 | ZBED4 | 17 | 26 | - | 14.19 | GTCGCCCCGC |
| EuthAT-N1 | TBX19 | 234 | 250 | - | 14.17 | TCACAGATGGGTGTTAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
