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
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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 | KLF12 | 356 | 364 | - | 18.01 | GGGGCGGGG |
| MER52A | KLF10 | 118 | 126 | - | 17.88 | GGGGCGGGG |
| MER52A | KLF10 | 356 | 364 | - | 17.88 | GGGGCGGGG |
| MER52A | SP1 | 118 | 126 | - | 17.80 | GGGGCGGGG |
| MER52A | SP1 | 356 | 364 | - | 17.80 | GGGGCGGGG |
| MER52A | ZNF680 | 1166 | 1176 | - | 17.76 | CCAGGAAGAAT |
| MER52A | Bteb2 | 1245 | 1257 | + | 17.62 | AACACGCCCCCTG |
| MER52A | PLAG1 | 583 | 596 | + | 17.57 | GAGGCCGAGGGGGG |
| MER52A | SP2 | 118 | 126 | - | 17.56 | GGGGCGGGG |
| MER52A | SP2 | 356 | 364 | - | 17.56 | GGGGCGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
