AluYc3
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000058 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Hominoidea |
| Length | 300 |
| Kimura value | 3.98 |
| Tau index | 0.9864 |
| Description | AluYc3 subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. AluYc2, AluYc3, and AluYd3a1 are identical. Naming convention suggests AluYc2 is preferred, as seq differs from AluY at 2 positions. |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCTTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGAGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| AluYc3 | DOF3.6 | 279 | 299 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluYc3 | DOF3.6 | 280 | 300 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| AluYc3 | DOF3.6 | 270 | 290 | - | 19.33 | TTTTTTTTTTTTTTTTTTTTG |
| AluYc3 | ZNF135 | 39 | 52 | - | 19.08 | CCTCGGCCTCCCAA |
| AluYc3 | ZNF213 | 238 | 249 | - | 18.09 | GCCCAGGCTGGA |
| AluYc3 | DOF3.6 | 269 | 289 | - | 17.41 | TTTTTTTTTTTTTTTTTTTGA |
| AluYc3 | Zfx | 44 | 53 | - | 15.70 | GCCTCGGCCT |
| AluYc3 | DOF5.1 | 271 | 289 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluYc3 | DOF5.1 | 272 | 290 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluYc3 | DOF5.1 | 273 | 291 | + | 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.
