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 | RME1 | 368 | 377 | - | 14.43 | TCCAAAGGAA |
| MER67C | MYB62 | 295 | 303 | - | 14.33 | AAGTTAGGC |
| MER67C | CDF5 | 634 | 654 | + | 14.30 | TTTTCTTTCTCTTCTACCTTT |
| MER67C | BZIP18 | 180 | 189 | + | 14.20 | TGCCAGCTTT |
| MER67C | CG8319 | 401 | 410 | + | 14.16 | TGGTCACCCC |
| MER67C | FoxP | 486 | 494 | - | 14.13 | GATAAACAA |
| MER67C | AT1G74840 | 372 | 380 | + | 14.00 | TTTGGATAA |
| MER67C | let-381 | 486 | 493 | - | 13.99 | ATAAACAA |
| MER67C | Spz1 | 286 | 296 | + | 13.95 | AGGGTAGGAGC |
| MER67C | MYB116 | 294 | 303 | + | 13.85 | AGCCTAACTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
