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 | DOF3.6 | 288 | 308 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSc5 | DOF3.6 | 289 | 309 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSc5 | DOF3.6 | 279 | 299 | - | 19.33 | TTTTTTTTTTTTTTTTTTTTG |
| AluSc5 | ZNF135 | 39 | 52 | - | 19.08 | CCTCGGCCTCCCAA |
| AluSc5 | DOF3.6 | 278 | 298 | - | 17.41 | TTTTTTTTTTTTTTTTTTTGA |
| AluSc5 | E(spl)mgamma-HLH | 146 | 155 | - | 17.02 | GCACGCGCCA |
| AluSc5 | ZNF135 | 172 | 185 | - | 16.04 | CCTCAGCCTCCCGA |
| AluSc5 | h | 147 | 156 | - | 15.79 | GGCACGCGCC |
| AluSc5 | h | 147 | 156 | + | 15.79 | GGCGCGTGCC |
| AluSc5 | Zfx | 44 | 53 | - | 15.70 | GCCTCGGCCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
