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 | SNAI1 | 139 | 145 | - | 13.20 | GCAGGTG |
| MER61B | ZBED2 | 34 | 40 | + | 13.20 | CGAAACC |
| MER61B | AZF1 | 300 | 308 | - | 13.11 | AAAAGGAAA |
| MER61B | AZF1 | 307 | 315 | - | 13.11 | AAAAGGAAA |
| MER61B | SP2 | 101 | 109 | - | 13.07 | AGGGCGGGC |
| MER61B | LYS14 | 325 | 331 | - | 12.96 | CGGAATT |
| MER61B | KLF5 | 195 | 204 | - | 12.92 | GCTCCTCCCC |
| MER61B | TCF4 | 138 | 145 | + | 12.90 | CCACCTGC |
| MER61B | SWI5 | 84 | 90 | + | 12.85 | TGCTGGT |
| MER61B | DOF1.7 | 306 | 316 | - | 12.85 | GAAAAGGAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
