MER67C
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000909 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Boreoeutheria |
| Length | 711 |
| Kimura value | 20.40 |
| Tau index | 1.0000 |
| Description | MER67C Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | MER67C is an LTR for a MER4-int type ERV with distant similarity to LTR70. It has 4 bp TSDs and is found in humans and rodents. 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 |
TGTAAGGGCAAATACAAATTAAAAATAAGAGGCTTAATTCTCCCTGTTGAAAATAAGGGAAAGAGACTTCCCTCCCTCCCTTTTCTTAGAGCATTTACTTTAGAAAACTTGTAATTGTAAATTCTTTCTCTGTCTCTTTGAAATGTATGTAAATCTTTTTAAAAGCTAAATAAGCCTCTTGCCAGCTTTACGACCCAGGAATGTCTTTCTCAAGGACCTGGGAGCCATCTCTTTGAAATGTAANCATCAAGGAAGATAGCGCCCCTATCTCCCAGTTTCTGTGGGAGGGTAGGAGCCTAACTTCGGTGGGCGCCTTGCTCCAAGTTGCAAAACTACCTCCTGTCATAAAGATATGAGAAGTTTATTTTTCCTTTGGATAAAGCCAATTAGCNAACACAGATGGTCACCCCAATTACCAGGTGAATTTAGGATGAACTATGTGTGACAAATGGTGCTGTCAAGTCCTCTTACTTGAGGACTAGTTATTGTTTATCTTGAGAACATGTATGTAATGGGTTGTATCTGCTTGGCTATATAAAAGGGTGAGATTTCTTTCTGTCTTTGCAATCTCTTAGCGGATTGCCTGTGATGCGCATCACATTCTGGTTTAATGCTTATTCAATAATAAAACTGTTTTCTTTCTCTTCTACCTTTGTGGAGAGGTTTTCTGGGTTGGGAGGAGATTTTGTTTTTAATTATATTTCCCCAACA
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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 |
|---|---|---|---|---|---|---|
| MER67C | Ptf1A | 396 | 404 | + | 13.45 | ACAGATGGT |
| MER67C | Gsx | 600 | 619 | + | 13.42 | ATTCTGGTTTAATGCTTATT |
| MER67C | KLF17 | 70 | 83 | + | 13.37 | CCCTCCCTCCCTTT |
| MER67C | Atoh1 | 397 | 403 | + | 13.34 | CAGATGG |
| MER67C | NEUROG2 | 397 | 403 | + | 13.29 | CAGATGG |
| MER67C | PRDM1 | 124 | 130 | + | 13.28 | CTTTCTC |
| MER67C | PRDM1 | 205 | 211 | + | 13.28 | CTTTCTC |
| MER67C | PRDM1 | 638 | 644 | + | 13.28 | CTTTCTC |
| MER67C | MYB108 | 294 | 303 | + | 13.26 | AGCCTAACTT |
| MER67C | POU3F4 | 146 | 154 | + | 13.17 | TATGTAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
