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 | DOF5.1 | 291 | 309 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSg | DOF5.1 | 292 | 310 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSg | DOF3.6 | 278 | 298 | - | 15.64 | TTTTTTTTTTTTTTTTTTGAG |
| AluSg | luna | 138 | 146 | - | 15.26 | ACCACGCCC |
| AluSg | ZNF135 | 204 | 217 | - | 15.26 | CCTCCGCCTCCCGG |
| AluSg | Klf3/8/12 | 138 | 146 | - | 15.24 | ACCACGCCC |
| AluSg | h | 147 | 156 | + | 14.94 | GGCGCGCGCC |
| AluSg | h | 147 | 156 | - | 14.94 | GGCGCGCGCC |
| AluSg | KLF3 | 138 | 147 | - | 14.83 | CACCACGCCC |
| AluSg | ERF057 | 207 | 220 | - | 14.79 | CAACCTCCGCCTCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
