AluSg
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000039 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Simiiformes |
| Length | 310 |
| Kimura value | 5.97 |
| Tau index | 0.7845 |
| Description | AluSg 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 |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluSg | ZNF460 | 171 | 186 | - | 28.48 | GCCTCAGCCTCCCGAG |
| AluSg | ZNF460 | 203 | 218 | - | 25.45 | ACCTCCGCCTCCCGGG |
| AluSg | ZNF460 | 38 | 53 | - | 22.88 | GCCTCGGCCTCCCAAA |
| AluSg | DOF3.6 | 281 | 301 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSg | DOF3.6 | 282 | 302 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSg | DOF3.6 | 283 | 303 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSg | DOF3.6 | 284 | 304 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSg | DOF3.6 | 285 | 305 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSg | DOF3.6 | 286 | 306 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluSg | DOF3.6 | 287 | 307 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
