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 | NR2F2 | 93 | 99 | - | 13.14 | AAGGTCA |
| MIRb | AGL16 | 131 | 145 | + | 13.12 | TTTCCTCATCTGTAA |
| MIRb | nhr-25 | 93 | 100 | - | 13.07 | CAAGGTCA |
| MIRb | AT5G05790 | 147 | 160 | - | 13.02 | ATTATTATCCCCAT |
| MIRb | Ptx1 | 185 | 191 | - | 12.99 | TTAATCC |
| MIRb | Nr5A2 | 93 | 101 | + | 12.96 | TGACCTTGG |
| MIRb | ZNF331 | 69 | 78 | - | 12.91 | GGCAGAGCCG |
| MIRb | ZNF784 | 161 | 168 | + | 12.89 | ACCTACCT |
| MIRb | MYB61 | 160 | 167 | + | 12.89 | TACCTACC |
| MIRb | Ppara | 93 | 99 | - | 12.88 | AAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
