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 | h | 13 | 22 | - | 14.94 | GGCGCGCGCC |
| FAM | KLF3 | 4 | 13 | - | 14.43 | CACCGCGCCC |
| FAM | ZNF257 | 48 | 57 | + | 14.34 | GAGGCGGGAG |
| FAM | EREB71 | 4 | 13 | - | 14.22 | CACCGCGCCC |
| FAM | RAV2 | 135 | 142 | + | 14.09 | GCAACATA |
| FAM | E(spl)mgamma-HLH | 12 | 21 | - | 13.84 | GCGCGCGCCA |
| FAM | ZNF263 | 53 | 59 | + | 13.83 | GGGAGGA |
| FAM | RPN4 | 10 | 16 | + | 13.80 | GGTGGCG |
| FAM | TEM1 | 135 | 142 | + | 13.75 | GCAACATA |
| FAM | ZNF384 | 160 | 167 | + | 13.57 | AAAAAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
