AluSc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000003 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Simiiformes |
| Length | 309 |
| Kimura value | 6.52 |
| Tau index | 0.8099 |
| Description | AluSc subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAAGAGATCGAGACCATCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluSc | BPC1 | 282 | 305 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSc | BPC1 | 283 | 306 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSc | BPC1 | 284 | 307 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSc | BPC1 | 285 | 308 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSc | BPC1 | 286 | 309 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSc | BPC1 | 279 | 302 | + | -2.03 | CAAAAAAAAAAAAAAAAAAAAAAA |
| AluSc | Rarb | 64 | 79 | + | -2.21 | CGAGGTCAAGAGATCG |
| AluSc | Rarg | 65 | 79 | + | -2.64 | GAGGTCAAGAGATCG |
| AluSc | Rarb | 56 | 71 | + | -6.02 | GCGGATCACGAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
