MIR
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000001 |
|---|---|
| TE superfamily | L2-end |
| TE class | SINE |
| Species | Mammalia |
| Length | 262 |
| Kimura value | 31.97 |
| Tau index | 0.9376 |
| Description | MIR (Mammalian-wide Interspersed Repeat) |
| Comment | MIR is a pan-mammalian SINE with a 5' end derived from a tRNA, a central deeply-conserved CORE region, and a 3' terminal ~55bp related to an L2 LINE. |
| Sequence |
ACAGTATAGCATAGTGGTTAAGAGCACGGGCTCTGGAGCCAGACTGCCTGGGTTCGAATCCCGGCTCTGCCACTTACTAGCTGTGTGACCTTGGGCAAGTTACTTAACCTCTCTGTGCCTCAGTTTCCTCATCTGTAAAATGGGGATAATAATAGTACCTACCTCATAGGGTTGTTGTGAGGATTAAATGAGTTAATACATGTAAAGCGCTTAGAACAGTGCCTGGCACATAGTAAGCGCTCAATAAATGTTAGCTATTATT
|
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 |
|---|---|---|---|---|---|---|
| MIR | Ptx1 | 181 | 187 | - | 12.99 | TTAATCC |
| MIR | Nr5A2 | 86 | 94 | + | 12.96 | TGACCTTGG |
| MIR | ZNF331 | 62 | 71 | - | 12.91 | GGCAGAGCCG |
| MIR | ZNF784 | 157 | 164 | + | 12.89 | ACCTACCT |
| MIR | MYB61 | 156 | 163 | + | 12.89 | TACCTACC |
| MIR | Ppara | 86 | 92 | - | 12.88 | AAGGTCA |
| MIR | svp | 86 | 92 | - | 12.82 | AAGGTCA |
| MIR | SPL5B | 152 | 158 | + | 12.81 | ATAGTAC |
| MIR | Nkx3-1 | 70 | 76 | + | 12.79 | CCACTTA |
| MIR | Hoxd13 | 242 | 248 | + | 12.73 | CAATAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
