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 | Hoxd13 | 361 | 367 | + | 12.73 | CAATAAA |
| MER110A | Hoxd13 | 444 | 450 | + | 12.73 | CAATAAA |
| MER110A | ZNF257 | 383 | 392 | - | 12.64 | GAGGAGGGAG |
| MER110A | DOF4.7 | 136 | 144 | + | 12.62 | TAACTTTAT |
| MER110A | ZMS1 | 319 | 325 | + | 12.61 | CCCCGCA |
| MER110A | EGR1 | 20 | 29 | + | 12.59 | CCACCCACAC |
| MER110A | CG11617 | 49 | 55 | + | 12.44 | TTAACAT |
| MER110A | pal-1 | 443 | 450 | + | 12.42 | GCAATAAA |
| MER110A | RVE7L | 364 | 372 | + | 12.35 | TAAATATCC |
| MER110A | GATAd | 462 | 468 | + | 12.32 | CTTATCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
