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 | ZNF460 | 37 | 52 | - | 28.48 | GCCTCAGCCTCCCGAG |
| FAM | DOF3.6 | 160 | 180 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| FAM | DOF3.6 | 161 | 181 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| FAM | DOF3.6 | 162 | 182 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| FAM | DOF3.6 | 163 | 183 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| FAM | DOF3.6 | 164 | 184 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| FAM | DOF3.6 | 165 | 185 | - | 21.52 | TTTTTTTTTTTTTTTTTTTTT |
| FAM | ZNF213 | 125 | 136 | - | 18.09 | GCCCAGGCTGGA |
| FAM | ZNF135 | 70 | 83 | - | 18.03 | CCTCGAACTCCTGG |
| FAM | ZNF135 | 38 | 51 | - | 16.04 | CCTCAGCCTCCCGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
