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 | DOF3.6 | 290 | 310 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSq4 | DOF3.6 | 291 | 311 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSq4 | DOF3.6 | 281 | 301 | - | 19.33 | TTTTTTTTTTTTTTTTTTTTG |
| AluSq4 | ZNF135 | 39 | 52 | - | 19.08 | CCTCGGCCTCCCAA |
| AluSq4 | ZNF213 | 248 | 259 | - | 18.09 | GCCCAGGCTGGA |
| AluSq4 | DOF3.6 | 280 | 300 | - | 17.41 | TTTTTTTTTTTTTTTTTTTGA |
| AluSq4 | ZNF135 | 172 | 185 | - | 16.04 | CCTCAGCCTCCCGA |
| AluSq4 | ZNF135 | 69 | 82 | - | 15.84 | TCTCGAACTCCTGA |
| AluSq4 | Zfx | 44 | 53 | - | 15.70 | GCCTCGGCCT |
| AluSq4 | DOF5.1 | 282 | 300 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
