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 | eor-1 | 125 | 137 | - | 17.21 | AGAGACAGAGAAA |
| MER67C | Msgn1 | 444 | 453 | + | 17.20 | GACAAATGGT |
| MER67C | TCX6 | 147 | 161 | + | 15.58 | ATGTAAATCTTTTTA |
| MER67C | eor-1 | 127 | 139 | - | 15.44 | AAAGAGACAGAGA |
| MER67C | ZHD6 | 692 | 703 | - | 15.34 | AAATATAATTAA |
| MER67C | ZNF354A | 20 | 39 | + | 15.32 | TAAAAATAAGAGGCTTAATT |
| MER67C | ZBTB7B | 303 | 312 | - | 15.14 | CGCCCACCGA |
| MER67C | Neurod2 | 396 | 403 | + | 14.69 | ACAGATGG |
| MER67C | cnd-1 | 397 | 404 | + | 14.66 | CAGATGGT |
| MER67C | NEUROD1 | 396 | 403 | + | 14.58 | ACAGATGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
