MER110A
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000706 |
|---|---|
| TE superfamily | ERV1 |
| TE class | 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 | ZBED2 | 8 | 14 | + | 13.20 | CGAAACC |
| MER110A | srp | 461 | 468 | - | 12.97 | TGATAAGA |
| MER110A | F10B5.3 | 95 | 105 | + | 12.96 | TATTCCAGGAA |
| MER110A | THAP1 | 379 | 386 | - | 12.95 | GGAGGGCA |
| MER110A | STAT3 | 97 | 105 | + | 12.84 | TTCCAGGAA |
| MER110A | STAT1 | 97 | 105 | - | 12.84 | TTCCTGGAA |
| MER110A | Sox6 | 455 | 464 | + | 12.80 | GCTTTGTCTT |
| MER110A | Stat5a::Stat5b | 97 | 105 | - | 12.78 | TTCCTGGAA |
| MER110A | Cdx | 443 | 450 | - | 12.76 | TTTATTGC |
| MER110A | Hoxd13 | 140 | 146 | - | 12.73 | CAATAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
