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 | KLF17 | 4 | 17 | - | 15.46 | ACCACGCTGCCCCT |
| MIRb | ESRRA | 93 | 101 | - | 15.37 | CCAAGGTCA |
| MIRb | PK06182.1 | 160 | 167 | + | 15.27 | TACCTACC |
| MIRb | Esrrg | 93 | 101 | - | 14.81 | CCAAGGTCA |
| MIRb | ERR | 93 | 100 | - | 14.77 | CAAGGTCA |
| MIRb | MYB3 | 160 | 167 | - | 14.67 | GGTAGGTA |
| MIRb | ZNF768 | 114 | 122 | + | 14.62 | ACCTCTCTG |
| MIRb | ESRRB | 92 | 101 | - | 14.41 | CCAAGGTCAC |
| MIRb | pita | 58 | 75 | - | 14.17 | AGAGCCGGGATTCGAACC |
| MIRb | Hr39 | 93 | 100 | - | 14.02 | CAAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
