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 | NAC103 | 96 | 102 | + | 12.64 | CAAGTTA |
| MIR | MYB67 | 156 | 163 | + | 12.61 | TACCTACC |
| MIR | HDG7 | 242 | 251 | - | 12.52 | ACATTTATTG |
| MIR | NAC062 | 100 | 106 | - | 12.45 | TAAGTAA |
| MIR | At3g11280 | 140 | 153 | - | 12.44 | ATTATTATCCCCAT |
| MIR | PITX2 | 180 | 187 | - | 12.42 | TTAATCCT |
| MIR | PK21166.1 | 156 | 163 | + | 12.37 | TACCTACC |
| MIR | ANL2 | 242 | 251 | - | 12.33 | ACATTTATTG |
| MIR | HMRA2 | 199 | 206 | + | 12.33 | CATGTAAA |
| MIR | ZBTB26 | 31 | 38 | - | 12.26 | CTCCAGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
