MER52A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000856 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 1755 |
| Kimura value | 12.01 |
| Tau index | 0.9189 |
| Description | MER52A Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | MER52A is associated with MER52-int, and has 4 bp TSDs. The originally reported orientation has been reversed. 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 |
TGATGGCAGCGGCGGCCCGTCTGGAGCGGCCGCTGCNANGACGCCGGCTGCAGCGGGGGAGGCGCGGCCGGGGCTGCGCGCTCCACGGAGCCGGCGGGAGCCGGGAACAGGCGGGAGCCCCGCCCCCTTCCGAGTTGGGGCGGGAGCNNCCCGGGTGCGGCTGCAGCCGCCCANNCGCGGACCCGGGCNTCCCCGTGCTCNTGGGGNCCGGGAGCAGGCAGGAGCCCCGCCCTCCCGGGCGCAGCTGCAGCCGCCCAGCCGCGGCTGCGGACCCGGGCATCCCTGCGCTCTCGGGGGCCCGGGAAGNCCCCCCTGCCCCCGCAGGCTTGGAAGTGCCTGCTCCCGCCGCGNNCGNCCCCGCCCCGNNNNCGNCGNNCGNNCCGCAGGCTCGGAAGTGCCTGCTCCCGCTGCCTGGCCTCTCCCCGCTCCCGGCGCCCGCTCCGATTTCGGAGCAAAGTTGNGGCCGAGCCCGGGCGCTGTCGCGACCCGGCCGGGTGTGCGCGCGCTCGGGGCGGCGCTGACACGCCAGCCCCCTGCCGCCTCGGCCCCCTCCGGACTTTGGGCGCCGACGAGCACGGGAGGGAGGCCGAGGGGGGGCTGAGGGCGGCTCGGCGCGGGCCTGCAGGCGCCCCTCGGCACGAACAGCCTGGGCGCCATGGACGGCAGCAGGAGGCAGACAGGCTCCTGGGCGGAAAGGGGCGGGTCCCCGGTGAAGCCCCACCTTCAAGCCAGGGACGGCCTGAAGCCTGGGGGCCGGGCTGCCAGTTCCGGGTGGAGTCCGCGGACCGGAGTGAGAACTTATGGTGCTTTTTCCGGGCCCGCCCATGGCCGCCCATGGACCAATCAGCACGCACTTCCTCCCCTCTGAAGCCCATAAAAACCCCGGACTCAGCCAGACTCGGGCAGACGTCGGGACGACCAGCTGCGGAGAGGAGCTACCCACTCCGGGNTCTCCTCTCTGCTGAGAGCTGNANAGNCGTCGGGACGACCTGCCTGCGGAGAGGAGCTACCCACTCCAGGGTCTCCTCTCTGCTGAGAGCTGAACACTCGTCGGGACGACCTGCCTGCGGAAAGGAGCTACCCACTNCGGGTCTCCTGNGAGCTGTTCTGTCGCTCAATAAAGCTCCTCTTCGCCTTGCTCACCCTCCANTTGTCCGCGTACCTCATTCTTCCTGGACGCGGGACAAGAACTCGGGACCCGCCGAATGGCGGGGCTGAAAGAGCTGTAACACAAACAGGGCTGAAACACGCCCCCTGCTCGCCACGTTGCGGGCGACGAGAAGGAGAGAAGAGCTGCGGCCCTTCGGGGAGCCCAGACCTAGGAGCTCCCCGAGCCAGGGCTGTGACACCCTCTTTGGGGCTCTGCGGTTCCTGGCGTCTCCAAGCTTCCGGGCGCCACCGCGTTCCCCGGTGCCCGCNGTGGAAGCCGCTTGCGGTACGCCTGGTCCAGCCGCAGCCTCGCAGGGAGCCGGCGCCCGTGCCGGCGCCTGGAGCTGCCCGCCCCGCCGCAGCCGGCGTGCCTGGCTGTGCGCAGTGGCCGGACCCCGCGCTCGCTCGCTCACACACCCCTCGCCGCTCCGCGCCTGGCTCGCCCTTGGCAGGCGTGGGATCCGGGCCGGTAGCGCGAGCCGAGCGCAGCCTGCCAGGCCGAGTGGGCGGAACGAGCCCAGCGGGCCCGAGCAAAACTCGGGCAAAGGCGCCACCGGCCACAGAGGTTTCCGGCCGGNAAAGCGACACCCCAAGGATCCCGTGACA
|
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 |
|---|---|---|---|---|---|---|
| MER52A | DAL81 | 582 | 600 | + | -51.72 | GGAGGCCGAGGGGGGGCTG |
| MER52A | DAL81 | 1244 | 1262 | - | -52.00 | GCGAGCAGGGGGCGTGTTT |
| MER52A | DAL81 | 1422 | 1440 | + | -52.00 | GGAAGCCGCTTGCGGTACG |
| MER52A | DAL81 | 774 | 792 | + | -52.00 | GGAGTCCGCGGACCGGAGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
