BC200
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000073 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Primates |
| Length | 145 |
| Kimura value | 10.40 |
| Tau index | 1.0000 |
| Description | Alu-related SINE/putative ncRNA gene |
| Comment | 5' end derives from Alu, middle is A-rich, 3' region unique to BC200. |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCTCTTAGGGAGGCNNAGAGGCGGGAGGATAGCTTGAGCCCAGGAGTTCGAGACCTGCCTGGGCAATATAGCGAGACCCCGTTCTCCACAAAAAGGAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| BC200 | RXRB | 77 | 90 | + | 9.03 | GAGTTCGAGACCTG |
| BC200 | IDD6 | 120 | 135 | - | 8.66 | TTTTTTCCTTTTTGTG |
| BC200 | IDD6 | 120 | 135 | - | 8.56 | TTTTTTCCTTTTTGTG |
| BC200 | GAF1 | 130 | 144 | + | 8.48 | AAAAAAAAAAAAAAA |
| BC200 | GAF1 | 131 | 145 | + | 8.48 | AAAAAAAAAAAAAAA |
| BC200 | GAF1 | 121 | 135 | + | 7.85 | ACAAAAAGGAAAAAA |
| BC200 | GAF1 | 126 | 140 | + | 6.26 | AAGGAAAAAAAAAAA |
| BC200 | IRF3 | 123 | 139 | + | 4.99 | AAAAAGGAAAAAAAAAA |
| BC200 | phol | 97 | 106 | - | 2.44 | CGCTATATTG |
| BC200 | BPC1 | 122 | 145 | + | -1.48 | CAAAAAGGAAAAAAAAAAAAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
