Arthur1A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000070 |
|---|---|
| TE superfamily | Tip100 |
| TE class | DNA |
| Species | Eutheria |
| Length | 177 |
| Kimura value | 25.80 |
| Tau index | 0.0000 |
| Description | hAT-Tip100 DNA transposon, Arthur1A subfamily |
| Comment | Arthur1A has 8 bp TSDs and 12 bp TIRs. Positions 1-79 and 79-177 correspond to 1-79 & 3849-3947 of the autonomous Arthur1. |
| Sequence |
CAGAGGCGGATTTACCGTGAAGCTAATGAAGCTTAAGCTTCAGGGCCCCTCACTTGCACGGGCCCCTTCCAAGGCCCTGTACCTAATTTTGTATTCGTAATTTTGTATTCTTTTTCTTAAAGAGGGCCCCCCAAATTGTATAAGCTTCAGGCCCCACAAAACCTGGATCCGCCCCTG
|
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 |
|---|---|---|---|---|---|---|
| Arthur1A | PLAGL2 | 125 | 132 | + | 13.18 | GGCCCCCC |
| Arthur1A | VIT_15s0048g01150 | 150 | 157 | + | 13.13 | GGCCCCAC |
| Arthur1A | sptf-3 | 169 | 175 | + | 13.11 | CCGCCCC |
| Arthur1A | TCP23 | 150 | 157 | + | 13.11 | GGCCCCAC |
| Arthur1A | MYB62 | 81 | 89 | - | 12.89 | AAATTAGGT |
| Arthur1A | MYB39 | 78 | 89 | + | 12.80 | TGTACCTAATTT |
| Arthur1A | MYB121 | 80 | 88 | + | 12.79 | TACCTAATT |
| Arthur1A | AT3G10580 | 134 | 147 | + | 12.71 | AATTGTATAAGCTT |
| Arthur1A | TCP8 | 150 | 157 | + | 12.69 | GGCCCCAC |
| Arthur1A | OsI_08196 | 150 | 157 | + | 12.69 | GGCCCCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
