7SLRNA
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000016 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Vertebrata_vertebrates |
| Length | 320 |
| Kimura value | 9.38 |
| Tau index | 0.7427 |
| Description | 7SL ncRNA gene / pseudogene |
| Comment | RNA component of the Signal Recognition Particle (SRP). 7SL RNA is the source of the Alu family of repeats. Human 7SL gene source: X04249.1:61-359. Note that the PolyA tail is not genomically encoded. |
| Sequence |
GCCGGGCGCGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAGGATCGCTTGAGCCCAGGAGTTCTGGGCTGTAGTGCGCTATGCCGATCGGGTGTCCGCACTAAGTTCGGCATCAATATGGTGACCTCCCGGGAGCGGGGGACCACCAGGTTGCCTAAGGAGGGGTGAACCGGCCCAGGTCGGAAACGGAGCAGGTCAAAACTCCCGTGCTGATCAGTAGTGGGATCGCGCCTGTGAATAGCCACTGCACTCCAGCCTGGGCAACATAGCGAGACCCCGTCTCTTAAAAAAAAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| 7SLRNA | ZNF460 | 37 | 52 | - | 28.48 | GCCTCAGCCTCCCGAG |
| 7SLRNA | DOF3.6 | 300 | 320 | - | 20.06 | TTTTTTTTTTTTTTTTTTTTA |
| 7SLRNA | DOF3.6 | 299 | 319 | - | 18.52 | TTTTTTTTTTTTTTTTTTTAA |
| 7SLRNA | ZNF213 | 266 | 277 | - | 18.09 | GCCCAGGCTGGA |
| 7SLRNA | ARALYDRAFT_496250 | 154 | 161 | + | 16.55 | GGGACCAC |
| 7SLRNA | ARALYDRAFT_897773 | 153 | 161 | + | 16.39 | GGGGACCAC |
| 7SLRNA | TCP3 | 154 | 161 | + | 16.23 | GGGACCAC |
| 7SLRNA | TCP24 | 154 | 161 | + | 16.21 | GGGACCAC |
| 7SLRNA | TCP5 | 154 | 161 | + | 16.15 | GGGACCAC |
| 7SLRNA | 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.
