Variant report
| Variant | rs11230188 |
|---|---|
| Chromosome Location | chr11:59971661-59971662 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs10897013 | 0.95[ASN][1000 genomes] |
| rs10897016 | 0.92[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs1117067 | 0.84[EUR][1000 genomes] |
| rs11230193 | 0.91[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs11230196 | 0.91[EUR][1000 genomes] |
| rs11230197 | 0.91[EUR][1000 genomes] |
| rs11230198 | 0.91[EUR][1000 genomes] |
| rs11230202 | 0.91[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs11230203 | 0.91[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs11230212 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes] |
| rs11518558 | 0.91[EUR][1000 genomes] |
| rs12363802 | 0.90[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs12422193 | 0.92[EUR][1000 genomes] |
| rs1426251 | 0.89[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs17154687 | 0.84[EUR][1000 genomes] |
| rs1834555 | 0.91[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1869200 | 0.91[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs4497428 | 0.91[EUR][1000 genomes] |
| rs4939319 | 0.91[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs73485316 | 0.91[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs7350544 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs7929057 | 0.91[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes] |
| rs7932904 | 0.91[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv468579 | chr11:59814287-59975400 | Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | nsv555150 | chr11:59814287-59975400 | Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 3 | nsv832174 | chr11:59909267-60073908 | Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 5 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs11230188 | HRASLS5 | cis | cerebellum | SCAN |
| rs11230188 | DAK | cis | parietal | SCAN |
| rs11230188 | OR5M9 | cis | parietal | SCAN |
| rs11230188 | DTX4 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:59969400-59971800 | Strong transcription | Monocytes-CD14+_RO01746 | blood |
| 2 | chr11:59969400-59972000 | Strong transcription | Primary monocytes fromperipheralblood | blood |
