AluSc5
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000037 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Simiiformes |
| Length | 309 |
| Kimura value | 6.60 |
| Tau index | 0.8226 |
| Description | AluSc5 subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGCGCGTGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCAGGGAGTCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluSc5 | DOF5.1 | 290 | 308 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSc5 | DOF5.1 | 291 | 309 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSc5 | DOF3.6 | 277 | 297 | - | 15.64 | TTTTTTTTTTTTTTTTTTGAG |
| AluSc5 | KLF6 | 137 | 145 | - | 15.53 | CCACGCCCA |
| AluSc5 | E(spl)mbeta-HLH | 149 | 156 | + | 15.34 | CGCGTGCC |
| AluSc5 | luna | 138 | 146 | - | 15.26 | ACCACGCCC |
| AluSc5 | Klf3/8/12 | 138 | 146 | - | 15.24 | ACCACGCCC |
| AluSc5 | ZNF135 | 69 | 82 | - | 14.93 | TCTCGATCTCCTGA |
| AluSc5 | KLF3 | 138 | 147 | - | 14.83 | CACCACGCCC |
| AluSc5 | Klf6-7-like | 131 | 150 | - | 14.68 | CGCCACCACGCCCAGCTAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
