MER110A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000706 |
|---|---|
| TE superfamily | ERV1 |
| TE order | LTR |
| Species | Eutheria |
| Length | 468 |
| Kimura value | 25.84 |
| Tau index | 0.0000 |
| Description | MER110A Long Terminal Repeat for ERV1 endogenous retrovirus |
| Comment | Similar to MER110 in the 3' region, and more modestly, to MER90a across that same region. 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 |
TGAGAACCGAAACCATCTACCACCCACACAGCTTACTGNCTGTCTACATTAACATGACTTTACTATTCCACTGTCTTCATCAACATGACTTTACTATTCCAGGAAACTCTTGCCCAGGAAGATAAAAGTTGCAAATAACTTTATTGTTCATTNCAGGAACTTCCCGAAAGACCCATCAACTCTTCAATAGAAAGCATCAAACGACAGTTTATCCCCAAGACTCTTTGAANCCCTCGCCTCAAAATCCTCGCCTTGCTGTGTCTNCGTCCACCAATCCTAAACTATTATATCATGATCCTTACCCAATCCTAATCAAGCCCCCGCATTGAAAGACCCGCCTTAAACCAGACTCCAAAATCTCAATAAATATCCCGACTTTGCCCTCCCTCCTCTGAGACGCTACTAAGACTCTGTAAGGTGGTGCTCTCCCTTACCGCGGTAAGCAATAAACTCAGCTTTGTCTTATCA
|
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 |
|---|---|---|---|---|---|---|
| MER110A | ceh-38 | 355 | 368 | + | 7.17 | AAATCTCAATAAAT |
| MER110A | RREB1 | 13 | 31 | + | 6.93 | CCATCTACCACCCACACAG |
| MER110A | ZNF558 | 182 | 210 | + | 6.58 | CTTCAATAGAAAGCATCAAACGACAGTTT |
| MER110A | ZNF140 | 57 | 75 | - | 5.04 | GACAGTGGAATAGTAAAGT |
| MER110A | MYB15 | 13 | 25 | - | 4.17 | GGGTGGTAGATGG |
| MER110A | SOX21 | 134 | 148 | + | 0.67 | AATAACTTTATTGTT |
| MER110A | IRF4 | 2 | 15 | + | 0.26 | GAGAACCGAAACCA |
| MER110A | TRP1 | 337 | 357 | + | -4.57 | GCCTTAAACCAGACTCCAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
