MER51A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000809 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Haplorrhini |
| Length | 634 |
| Kimura value | 10.95 |
| Tau index | 0.9329 |
| Description | MER51A Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | MER51A has 4 bp TSDs. 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 |
TGAGGCAGGAGAATAGGGTCTGGAGGCAGGGAACCTAAGGCCGATTCACGCTGACTTCCTAGAACTAAATCGAAAGGAAAACCCCAACTTTCCACGCCCAAGTAACAAAAGGACCAGAGGCTACTCCCTTTGCAACCCCCCACCTTTTCTGCGTGGCAGATGGAAAATTGAAAGTACCTCTGATTGGTCCCCTCCCGCAACCAATCAGACTGGTCGCGGGCCAAGTCTTCATTTGCATAGGAGTGTAACTTTGTAACTTCACTTCAGCCTCTGATTGGTCGCTTTCCGCAACCAATCAGACGTTTGCATAGGAGTGTAACTTTGTAACTTCACTTCAGCCTCTGATTGGTCGCTTTCCGCAACCAATCAGACTGATCGCGGGCCACTACTTCATTTACATAGGGTGTACACCAAGTAACCAATGGGAAACCTCTAGAGGGTATTTAAACCCCAGAAAATTCTGTAACCGGGCCCTTGAGCCGCTTGCTCGGGCCCGCTCCCACCCTGTGGAGTGTACTTTCGTTTTCAATAAATCTCTGCTTTCGTTGCTTCATTCTTTCCTTGCTTTGTTTGTGCGTTTTGTCCAATTCTTTGTTCAAAACGCCAAGAACCTGGACACCCTCCACCGGTAACA
|
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 |
|---|---|---|---|---|---|---|
| MER51A | MAZ | 189 | 196 | + | 16.08 | CCCCTCCC |
| MER51A | POU2F3 | 231 | 239 | - | 15.87 | TATGCAAAT |
| MER51A | nub | 391 | 401 | - | 15.82 | TATGTAAATGA |
| MER51A | IRF7 | 516 | 528 | - | 15.68 | TGAAAACGAAAGT |
| MER51A | dmrt99B | 245 | 257 | - | 15.68 | GTTACAAAGTTAC |
| MER51A | dmrt99B | 316 | 328 | - | 15.68 | GTTACAAAGTTAC |
| MER51A | POU3F4 | 231 | 239 | - | 15.57 | TATGCAAAT |
| MER51A | KLF6 | 92 | 100 | + | 15.53 | CCACGCCCA |
| MER51A | POU2F2 | 228 | 240 | - | 15.46 | CTATGCAAATGAA |
| MER51A | HAP5 | 200 | 213 | - | 15.18 | CCAGTCTGATTGGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
