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 | ZNF610 | 147 | 156 | - | 14.54 | CCCCCGCTCC |
| 7SLRNA | KLF3 | 4 | 13 | - | 14.43 | CACCGCGCCC |
| 7SLRNA | ARALYDRAFT_493022 | 154 | 161 | + | 14.36 | GGGACCAC |
| 7SLRNA | ZNF257 | 48 | 57 | + | 14.34 | GAGGCGGGAG |
| 7SLRNA | EREB71 | 4 | 13 | - | 14.22 | CACCGCGCCC |
| 7SLRNA | RAV2 | 276 | 283 | + | 14.09 | GCAACATA |
| 7SLRNA | TCP17 | 151 | 161 | - | 14.08 | GTGGTCCCCCG |
| 7SLRNA | MAZ | 173 | 180 | - | 14.06 | CCCCTCCT |
| 7SLRNA | TCP13 | 151 | 161 | + | 13.88 | CGGGGGACCAC |
| 7SLRNA | E(spl)mgamma-HLH | 12 | 21 | - | 13.84 | GCGCGCGCCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
