BC200
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000073 |
|---|---|
| TE superfamily | Alu |
| TE order | 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 | DOF5.1 | 123 | 141 | + | 23.32 | AAAAAGGAAAAAAAAAAAA |
| BC200 | DOF5.8 | 123 | 141 | - | 22.48 | TTTTTTTTTTTTCCTTTTT |
| BC200 | DOF5.1 | 124 | 142 | + | 20.95 | AAAAGGAAAAAAAAAAAAA |
| BC200 | DOF3.4 | 123 | 139 | - | 20.21 | TTTTTTTTTTCCTTTTT |
| BC200 | DOF5.8 | 124 | 142 | - | 18.33 | TTTTTTTTTTTTTCCTTTT |
| BC200 | DOF3.6 | 123 | 143 | - | 17.98 | TTTTTTTTTTTTTTCCTTTTT |
| BC200 | DOF3.6 | 125 | 145 | - | 17.92 | TTTTTTTTTTTTTTTTCCTTT |
| BC200 | DOF3.6 | 124 | 144 | - | 17.64 | TTTTTTTTTTTTTTTCCTTTT |
| BC200 | DOF3.6 | 121 | 141 | - | 16.38 | TTTTTTTTTTTTCCTTTTTGT |
| BC200 | ZNF213 | 86 | 97 | - | 16.06 | GCCCAGGCAGGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
