AluSz
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000051 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Haplorrhini |
| Length | 312 |
| Kimura value | 7.68 |
| Tau index | 0.6244 |
| Description | AluSz subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. This element is described in "Origin and evolution of Alu repetitive elements"; Jurka J.; Molecular Biology Intelligence Unit:The impact of short interspersed elements (SINEs) on the host genome (ed. Richard J. Maraia), R.G. Landes Company, Austin, pp.25-41 (1995) |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluSz | BPC1 | 286 | 309 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSz | BPC1 | 287 | 310 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSz | BPC1 | 288 | 311 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSz | BPC1 | 289 | 312 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluSz | BPC1 | 282 | 305 | + | -2.03 | CAAAAAAAAAAAAAAAAAAAAAAA |
| AluSz | Rarg | 57 | 73 | + | -5.36 | CGGATCACTTGAGGTCA |
| AluSz | RARA | 67 | 84 | + | -5.41 | GAGGTCAGGAGTTCGAGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
