MIRb
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000975 |
|---|---|
| TE superfamily | L2-end |
| TE class | SINE |
| Species | Mammalia |
| Length | 268 |
| Kimura value | 34.09 |
| Tau index | 0.8426 |
| Description | MIRb (Mammalian-wide Interspersed Repeat - variant b) |
| Comment | MIRb is a pan-mammalian SINE with a 5' end derived from a tRNA, a central deeply-conserved CORE region (shared with other MIRs), and a 3' terminal ~55bp related to an L2 LINE. |
| Sequence |
CAGAGGGGCAGCGTGGTGCAGTGGAAAGAGCACGGGCTTTGGAGTCAGACAGACCTGGGTTCGAATCCCGGCTCTGCCACTTACTAGCTGTGTGACCTTGGGCAAGTTACTTAACCTCTCTGAGCCTCAGTTTCCTCATCTGTAAAATGGGGATAATAATACCTACCTCGCAGGGTTGTTGTGAGGATTAAATGAGATAATGCATGTAAAGCGCTTAGCACAGTGCCTGGCACATAGTAAGCGCTCAATAAATGGTAGCTCTATTATT
|
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 |
|---|---|---|---|---|---|---|
| MIRb | hr3 | 90 | 97 | - | 13.92 | GGTCACAC |
| MIRb | NR5A1 | 93 | 104 | - | 13.84 | TGCCCAAGGTCA |
| MIRb | ZNF524 | 57 | 65 | - | 13.78 | TTCGAACCC |
| MIRb | FUS3 | 201 | 207 | - | 13.75 | ACATGCA |
| MIRb | MYB111 | 160 | 167 | - | 13.58 | GGTAGGTA |
| MIRb | NFIB | 214 | 230 | - | 13.51 | CCAGGCACTGTGCTAAG |
| MIRb | abi4 | 4 | 13 | - | 13.51 | CGCTGCCCCT |
| MIRb | sex-1 | 92 | 99 | - | 13.51 | AAGGTCAC |
| MIRb | MYB121 | 160 | 168 | + | 13.43 | TACCTACCT |
| MIRb | MYB46 | 160 | 167 | - | 13.26 | GGTAGGTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
