MER61B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000884 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 427 |
| Kimura value | 12.39 |
| Tau index | 0.9979 |
| Description | MER61B Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | MER61B has 4 bp TSDs. Note that MER stands for MEdium Reiteration frequency interspersed repeat. As such, MERs as a group are a grab bag of DNA transposons and retrotransposons. |
| Sequence |
TGATAGAGACAGGAGGCAGCCAAGGGTCCCCGGCGAAACCCCGCCTTCAAGCCTAAAACAGCCTGAAGGCTGAAAAACCGGACTGCTGGTCCCGGATGAAGCCCGCCCTTTCCCGACTGATTCTTTCTGAATAATGCCCACCTGCGCACTGGGAGGACGGGGTGGAGCCTCGGGAAGTTCGCGCCGTTTGCAGNGGGGAGGAGCCTGGCCTCTCCTGTTCCTGTGTGGTGACCTGGGATTCAATCTGTGAGGTGGGAGGCCTGTTAGCAGGACCCCCTCTCGCTTTGCTGAGAGTTNTTTTTCCTTTTTCCTTTTCGCCCAATAAATTCCGTTCTCCTCACCCTTCAATGTGTCCGCGNGCCTAATCTTTCCTGGTCGTGTGACAAGAACCCGGTTTTAGCTGAACTAAGGAGAAAGTTCTGCAACA
|
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 |
|---|---|---|---|---|---|---|
| MER61B | ERF::NHLH1 | 163 | 178 | + | 5.66 | TGGAGCCTCGGGAAGT |
| MER61B | IRF3 | 299 | 315 | - | 5.11 | AAAAGGAAAAAGGAAAA |
| MER61B | ZIC5 | 271 | 285 | + | 5.09 | GACCCCCTCTCGCTT |
| MER61B | IRF3 | 300 | 316 | - | 4.94 | GAAAAGGAAAAAGGAAA |
| MER61B | THRB | 219 | 236 | + | 4.89 | TCCTGTGTGGTGACCTGG |
| MER61B | GLI3 | 248 | 262 | - | 4.10 | AGGCCTCCCACCTCA |
| MER61B | bZIP911 | 227 | 238 | + | 2.33 | GGTGACCTGGGA |
| MER61B | Poxm | 44 | 58 | + | 0.16 | CCTTCAAGCCTAAAA |
| MER61B | ZSCAN16 | 259 | 276 | + | -21.04 | GCCTGTTAGCAGGACCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
