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 | NR5A1 | 86 | 97 | - | 13.84 | TGCCCAAGGTCA |
| MIR | ZNF524 | 50 | 58 | - | 13.78 | TTCGAACCC |
| MIR | MYB111 | 156 | 163 | - | 13.58 | GGTAGGTA |
| MIR | sex-1 | 85 | 92 | - | 13.51 | AAGGTCAC |
| MIR | MYB121 | 156 | 164 | + | 13.43 | TACCTACCT |
| MIR | MYB46 | 156 | 163 | - | 13.26 | GGTAGGTA |
| MIR | NR2F2 | 86 | 92 | - | 13.14 | AAGGTCA |
| MIR | AGL16 | 124 | 138 | + | 13.12 | TTTCCTCATCTGTAA |
| MIR | nhr-25 | 86 | 93 | - | 13.07 | CAAGGTCA |
| MIR | AT5G05790 | 140 | 153 | - | 13.02 | ATTATTATCCCCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
