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
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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 | ZNF384 | 136 | 143 | + | 13.57 | AAAAAAAA |
| BC200 | ZNF384 | 137 | 144 | + | 13.57 | AAAAAAAA |
| BC200 | ZNF384 | 138 | 145 | + | 13.57 | AAAAAAAA |
| BC200 | Zfp809 | 28 | 36 | + | 13.54 | ATCCCAGCT |
| BC200 | blmp-1 | 123 | 133 | + | 13.51 | AAAAAGGAAAA |
| BC200 | UGA3 | 53 | 59 | + | 13.34 | GGCGGGA |
| BC200 | ZNF416 | 89 | 98 | + | 13.31 | TGCCTGGGCA |
| BC200 | AP1 | 121 | 133 | + | 13.23 | ACAAAAAGGAAAA |
| BC200 | E2F6 | 53 | 60 | + | 13.22 | GGCGGGAG |
| BC200 | SP2 | 51 | 59 | + | 13.12 | GAGGCGGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
