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 | ZNF263 | 53 | 59 | + | 13.83 | GGGAGGA |
| 7SLRNA | RPN4 | 10 | 16 | + | 13.80 | GGTGGCG |
| 7SLRNA | sex-1 | 136 | 143 | - | 13.79 | GAGGTCAC |
| 7SLRNA | TEM1 | 276 | 283 | + | 13.75 | GCAACATA |
| 7SLRNA | ZNF384 | 301 | 308 | + | 13.57 | AAAAAAAA |
| 7SLRNA | ZNF384 | 302 | 309 | + | 13.57 | AAAAAAAA |
| 7SLRNA | ZNF384 | 303 | 310 | + | 13.57 | AAAAAAAA |
| 7SLRNA | ZNF384 | 304 | 311 | + | 13.57 | AAAAAAAA |
| 7SLRNA | ZNF384 | 305 | 312 | + | 13.57 | AAAAAAAA |
| 7SLRNA | ZNF384 | 306 | 313 | + | 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.
