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 | ZNF135 | 73 | 86 | - | 16.03 | TCTCGAACTCCTGG |
| BC200 | DOF3.6 | 120 | 140 | - | 15.91 | TTTTTTTTTTTCCTTTTTGTG |
| BC200 | PI | 120 | 133 | + | 15.47 | CACAAAAAGGAAAA |
| BC200 | DOF3.6 | 122 | 142 | - | 15.47 | TTTTTTTTTTTTTCCTTTTTG |
| BC200 | DOF4.2 | 123 | 133 | + | 15.42 | AAAAAGGAAAA |
| BC200 | ZBTB6 | 65 | 73 | + | 15.31 | GCTTGAGCC |
| BC200 | KLF3 | 5 | 14 | - | 14.43 | CACCGCGCCC |
| BC200 | DOF1.7 | 123 | 133 | + | 14.41 | AAAAAGGAAAA |
| BC200 | ZNF257 | 51 | 60 | + | 14.34 | GAGGCGGGAG |
| BC200 | EREB71 | 5 | 14 | - | 14.22 | CACCGCGCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
