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 | HAP5 | 839 | 852 | - | 17.25 | GCGTGCTGATTGGT |
| MER52A | Wt1 | 53 | 62 | - | 17.08 | CCTCCCCCGC |
| MER52A | Clamp | 1551 | 1564 | - | 17.02 | GTGTGAGCGAGCGA |
| MER52A | KLF5 | 117 | 126 | + | 17.00 | GCCCCGCCCC |
| MER52A | AS2 | 42 | 59 | + | 17.00 | CGCCGGCTGCAGCGGGGG |
| MER52A | NHLH1 | 240 | 248 | + | 16.93 | CGCAGCTGC |
| MER52A | ZNF610 | 23 | 32 | - | 16.89 | CGGCCGCTCC |
| MER52A | nfya-1 | 838 | 847 | + | 16.78 | GACCAATCAG |
| MER52A | ZNF93 | 2 | 15 | + | 16.77 | GATGGCAGCGGCGG |
| MER52A | SP8 | 1246 | 1256 | + | 16.63 | ACACGCCCCCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
