AluSq4
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000046 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Simiiformes |
| Length | 311 |
| Kimura value | 6.53 |
| Tau index | 0.9459 |
| Description | AluSq4 subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGGGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAAACCGGAAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluSq4 | BPC1 | 281 | 304 | + | -2.03 | CAAAAAAAAAAAAAAAAAAAAAAA |
| AluSq4 | RARA | 65 | 82 | + | -5.41 | GAGGTCAGGAGTTCGAGA |
| AluSq4 | 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.
