FAM
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000142 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Primates |
| Length | 185 |
| Kimura value | 13.82 |
| Tau index | 0.8780 |
| Description | FAM (Fossil Alu monomer) |
| Comment | FAM is a SINE that derives from a single, internally-deleted 7SL RNA. |
| Sequence |
GCCGGGCGCGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAGGATCGCTTGAGCCCAGGAGTTCGAGGCTGTAGTGCGCTATGATCGCGCCTGTGAATAGCCACTGCACTCCAGCCTGGGCAACATAGCGAGACCCCGTCTCTNAAAAAAAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| FAM | HES7 | 12 | 23 | + | 2.74 | TGGCGCGCGCCT |
| FAM | SNT2 | 97 | 106 | + | 1.91 | TGATCGCGCC |
| FAM | BPC1 | 160 | 183 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| FAM | BPC1 | 161 | 184 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
| FAM | BPC1 | 162 | 185 | + | -0.12 | AAAAAAAAAAAAAAAAAAAAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
