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 | DOF5.1 | 298 | 316 | - | 20.17 | GAAAAGGAAAAAGGAAAAA |
| MER61B | DOF5.8 | 298 | 316 | + | 19.74 | TTTTTCCTTTTTCCTTTTC |
| MER61B | DOF1.5 | 299 | 314 | - | 18.11 | AAAGGAAAAAGGAAAA |
| MER61B | DOF3.2 | 301 | 316 | + | 17.18 | TTCCTTTTTCCTTTTC |
| MER61B | DOF3.4 | 300 | 316 | + | 16.91 | TTTCCTTTTTCCTTTTC |
| MER61B | ZFP14 | 164 | 178 | + | 15.60 | GGAGCCTCGGGAAGT |
| MER61B | CDF5 | 300 | 320 | + | 15.42 | TTTCCTTTTTCCTTTTCGCCC |
| MER61B | DOF4.2 | 299 | 309 | - | 15.42 | AAAAAGGAAAA |
| MER61B | NHP10 | 27 | 34 | - | 15.18 | GCCGGGGA |
| MER61B | ken | 410 | 418 | - | 14.72 | ACTTTCTCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
