AluJo
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000034 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Primates |
| Length | 312 |
| Kimura value | 12.59 |
| Tau index | 0.9598 |
| Description | AluJo subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. This element is described in "Origin and evolution of Alu repetitive elements", by Jurka J., in Molecular Biology Intelligence Unit:The impact of short interspersed elements (SINEs) on the host genome (ed. Richard J. Maraia), R.G.Landes Company, Austin, pp.25-41 (1995). |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGAGGATCGCTTGAGCCCAGGAGTTCGAGACCAGCCTGGGCAACATAGCGAGACCCCGTCTCTACAAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAGGATCGCTTGAGCCCAGGAGNTCGAGGCTGCAGTGAGCTATGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACCCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluJo | DOF5.1 | 293 | 311 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluJo | DOF5.1 | 294 | 312 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluJo | DOF3.6 | 280 | 300 | - | 15.64 | TTTTTTTTTTTTTTTTTTGAG |
| AluJo | ZBTB6 | 198 | 206 | + | 15.31 | GCTTGAGCC |
| AluJo | ZBTB6 | 63 | 71 | + | 15.31 | GCTTGAGCC |
| AluJo | luna | 140 | 148 | - | 15.26 | ACCACGCCC |
| AluJo | Klf3/8/12 | 140 | 148 | - | 15.24 | ACCACGCCC |
| AluJo | h | 149 | 158 | + | 14.94 | GGCGCGCGCC |
| AluJo | h | 149 | 158 | - | 14.94 | GGCGCGCGCC |
| AluJo | KLF3 | 140 | 149 | - | 14.83 | CACCACGCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
