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 | NFIC | 551 | 557 | + | 13.37 | CTTGGCA |
| MER4B | UGA3 | 398 | 404 | - | 13.34 | GGCGGGA |
| MER4B | Atoh1 | 34 | 40 | - | 13.34 | CAGATGG |
| MER4B | NEUROG2 | 34 | 40 | - | 13.29 | CAGATGG |
| MER4B | TFAP2C | 519 | 527 | + | 13.25 | TCCTGAGGC |
| MER4B | NR6A1 | 541 | 554 | - | 13.21 | CAAGGTTAAGGACG |
| MER4B | TFAP2A | 519 | 527 | - | 13.19 | GCCTCAGGA |
| MER4B | sma-4 | 300 | 306 | - | 13.18 | TGTCTGG |
| MER4B | vfl | 241 | 247 | - | 13.07 | CAGGTAG |
| MER4B | Kr | 283 | 291 | + | 13.07 | CAACCCCTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
