MER4D1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000803 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 900 |
| Kimura value | 12.09 |
| Tau index | 0.9731 |
| Description | MER4D1 Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | MER4D1 LTR is a ~90% identical variant of MER4D, which itself is a ~192 bp insertion variant with respect to MER4B. 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 |
TGTAAACCAAAAATAAAATTCTAAGCCCCCCAACCGACTGAATGGACCCCTCCTCTCGGCCAAGGGCATTCCAAAGTAAACCTGAAAAACTAGTTCAGGCCATGATGGGAAGGGGGGGTCGGACATGCCTCATTATACCCTCCTCCCTTTGGAATTCAGGCACAACTGACCAGCATTAACATTAAAACAGAGATCTTAAGACTGACAAAACAGACTCTTTGTAGCAATAAGATACCAAATTCCAACCTGACTCTAGTATAGCATCACATGACAGATAGCAGGCCCTGAAAGAAATCGAAGTATTTTACCCCAAAATATATTTCTTTGACATATTTTGAAATGGCCCTGCAAAGCTGTCTCTTGTGGGGAAAATCTACATTCTGTAGAGAATCCCCTTCCCTTTCCAGGTCTTTTTCCTGATCCAGGAGAGAATTAACTAAGAGTCTGGCACCTTTTTAAGTCTGATAAGAAACATTTACAATCTATTCTCTCTGAAGCCTGCTACCTGGAGGCTTCATCTGCATGATAAGAACCTTGGTCTCCACAACCCCTTATCTTAACCCAGACACTCCTTTCTATTGATTCCAGGTCTTTAGATAATAACTNAACTCTTTCAACCAATTGCCAATCAGAAAATCTTTGAATCCACCGTATGACCTGGAAGCCCCCCCCTCCACTTCGAGTTGTCCCGCCTTTCCGGACCGAACCAATGTACATCTTACATGTATTGATTGATGTCTTATGTCTCCCTAAAATGTATAAAACCAAGCTGTAGCCCGACCACCTTGGGCACATGTTCTCAGGATCTCCTGGGGCTGTGTCACGGGCCATGGTCACTCATATTTGGCTCAGAATAAATCTCTTCAAATATTTTACAGAGTTTGACTCTTTTCGTCGACA
|
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 |
|---|---|---|---|---|---|---|
| MER4D1 | MEF2C | 7 | 17 | + | 14.47 | CCAAAAATAAA |
| MER4D1 | RIN | 7 | 16 | - | 14.47 | TTATTTTTGG |
| MER4D1 | GCR1 | 659 | 666 | + | 14.47 | TGGAAGCC |
| MER4D1 | ZBTB7C | 778 | 785 | + | 14.24 | CGACCACC |
| MER4D1 | GATA4 | 550 | 557 | + | 14.20 | CCTTATCT |
| MER4D1 | elt-2 | 463 | 470 | - | 14.16 | TCTTATCA |
| MER4D1 | elt-2 | 524 | 531 | - | 14.16 | TCTTATCA |
| MER4D1 | LBD13 | 645 | 652 | + | 14.12 | TCCACCGT |
| MER4D1 | MITF | 263 | 272 | + | 14.06 | ATCACATGAC |
| MER4D1 | MITF | 263 | 272 | - | 14.06 | GTCATGTGAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
