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 | ZNF263 | 675 | 681 | + | 13.83 | GGGAGGA |
| MER67C | lin-32 | 396 | 403 | + | 13.81 | ACAGATGG |
| MER67C | BZIP52 | 180 | 187 | + | 13.79 | TGCCAGCT |
| MER67C | Zm00001d027846 | 634 | 641 | - | 13.75 | AAAGAAAA |
| MER67C | DOF5.8 | 637 | 655 | + | 13.70 | TCTTTCTCTTCTACCTTTG |
| MER67C | HOXC12 | 186 | 195 | - | 13.69 | GGTCGTAAAG |
| MER67C | MEIS2 | 454 | 461 | - | 13.66 | TTGACAGC |
| MER67C | ZFP42 | 220 | 232 | - | 13.65 | AGAGATGGCTCCC |
| MER67C | HOXD10 | 186 | 195 | - | 13.64 | GGTCGTAAAG |
| MER67C | TEAD1 | 196 | 204 | - | 13.63 | ACATTCCTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
