MER4B
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000797 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 610 |
| Kimura value | 12.22 |
| Tau index | 0.9326 |
| Description | MER4B Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | 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 |
TGTAAACCAAAAATAAAATTCTAAGCCCCCCAACCATCTGAATGGACCCCTCCTCTCGGCCAAGGGCATTCCAAAGTTAACCTGAAAAACTGGTTCAGGCCATGATGGGAAGNGGGGGTCGGACATGCCTCATTATACCCTCCTCCCTTTTGGAATTCAGGNANAGCCGACCAGCATTAACATCAACACAGACCTTAAGTCTGATAAGAAACATTTACAATCTATTCTCTCTGAAGCCTGCTACCTGGAGGCTTCATCTGCATGATAAAACCTTGGTCTCCACAACCCCTTATCGTAACCCAGACATTCCTTTCTATTGATAATAACTCTTTCAACCAATTGCCAATCAGAAAATCTTTAAATCTACCTATGACCTGGAAGCCCCCGCTTCGAGTTGTCCCGCCTTTCCGGACCGAACCAATGTACATCTTACATGTATTGATTGATGTCTCATGTCTCCCTAAAATGTATAAAACCAAGCTGTACCCCGACCACCTTGGGCACATGTTCTCAGGACCTCCTGAGGCTGTGTCACGGGCGCGTCCTTAACCTTGGCAAAATAAACTTTCTAAATTGATTGAGACCTGTCTCAGATACTTTTGGGTTCACA
|
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 |
|---|---|---|---|---|---|---|
| MER4B | TEAD2 | 304 | 310 | + | 13.03 | ACATTCC |
| MER4B | TEAD3 | 66 | 73 | + | 12.98 | GCATTCCA |
| MER4B | srp | 202 | 209 | + | 12.97 | TGATAAGA |
| MER4B | knrl | 87 | 97 | + | 12.95 | AAACTGGTTCA |
| MER4B | NFYC | 343 | 349 | + | 12.90 | CCAATCA |
| MER4B | SWI5 | 170 | 176 | - | 12.85 | TGCTGGT |
| MER4B | elt-3 | 263 | 270 | - | 12.85 | TTTTATCA |
| MER4B | RIM101 | 551 | 557 | - | 12.82 | TGCCAAG |
| MER4B | TFCP2 | 87 | 95 | + | 12.79 | AAACTGGTT |
| MER4B | DAL80 | 289 | 295 | - | 12.77 | CGATAAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
