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 | GLI3 | 35 | 49 | - | 2.25 | CGGCCTCCCAAAGTG |
| AluYc3 | BPC1 | 271 | 294 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 272 | 295 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 273 | 296 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 274 | 297 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 275 | 298 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 276 | 299 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 277 | 300 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | BPC1 | 270 | 293 | + | -2.03 | CAAAAAAAAAAAAAAAAAAAAAAA |
| AluYc3 | Rarb | 56 | 71 | + | -6.02 | GCGGATCACGAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
