AluSc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000003 |
|---|---|
| TE superfamily | Alu |
| TE order | 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 | DOF3.6 | 277 | 297 | - | 15.64 | TTTTTTTTTTTTTTTTTTGAG |
| AluSc | KLF6 | 137 | 145 | - | 15.53 | CCACGCCCA |
| AluSc | luna | 138 | 146 | - | 15.26 | ACCACGCCC |
| AluSc | ZNF135 | 204 | 217 | - | 15.26 | CCTCCGCCTCCCGG |
| AluSc | Klf3/8/12 | 138 | 146 | - | 15.24 | ACCACGCCC |
| AluSc | h | 147 | 156 | + | 14.94 | GGCGCGCGCC |
| AluSc | h | 147 | 156 | - | 14.94 | GGCGCGCGCC |
| AluSc | KLF3 | 138 | 147 | - | 14.83 | CACCACGCCC |
| AluSc | ERF057 | 207 | 220 | - | 14.79 | CAACCTCCGCCTCC |
| AluSc | NR2F1 | 64 | 75 | + | 14.71 | CGAGGTCAAGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
