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 | ZNF684 | 175 | 188 | - | 6.15 | CCGGTTCACCCCTC |
| 7SLRNA | PLAG1 | 42 | 55 | + | 4.76 | GAGGCTGAGGCGGG |
| 7SLRNA | Zm00001d020595 | 7 | 16 | + | 4.75 | CGCGGTGGCG |
| 7SLRNA | HES7 | 12 | 23 | - | 3.16 | AGGCGCGCGCCA |
| 7SLRNA | HES7 | 12 | 23 | + | 2.74 | TGGCGCGCGCCT |
| 7SLRNA | phol | 129 | 138 | - | 2.44 | CACCATATTG |
| 7SLRNA | ZSCAN31 | 211 | 228 | + | 0.96 | TCAAAACTCCCGTGCTGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
