Variant report
| Variant | rs6945188 |
|---|---|
| Chromosome Location | chr7:16581890-16581891 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
| No data |
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rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs10259803 | 1.00[CEU][hapmap];0.97[GIH][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs13227774 | 1.00[ASN][1000 genomes] |
| rs13228107 | 1.00[ASN][1000 genomes] |
| rs13232164 | 1.00[ASN][1000 genomes] |
| rs13246140 | 1.00[ASN][1000 genomes] |
| rs2011930 | 0.92[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2014391 | 0.83[EUR][1000 genomes] |
| rs2108134 | 0.84[EUR][1000 genomes] |
| rs34000560 | 1.00[ASN][1000 genomes] |
| rs517529 | 0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6461263 | 0.94[CEU][hapmap];0.94[GIH][hapmap];0.94[MEX][hapmap];0.88[EUR][1000 genomes] |
| rs6950712 | 1.00[ASN][1000 genomes] |
| rs6951596 | 1.00[ASN][1000 genomes] |
| rs6956385 | 1.00[ASN][1000 genomes] |
| rs6961390 | 0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6963649 | 0.94[CEU][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6968892 | 1.00[ASN][1000 genomes] |
| rs6969347 | 1.00[ASN][1000 genomes] |
| rs6974070 | 0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6980285 | 0.82[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs7780726 | 1.00[ASN][1000 genomes] |
| rs7790525 | 1.00[ASN][1000 genomes] |
| rs7792294 | 0.94[CEU][hapmap] |
| rs886753 | 1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs886754 | 1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1016642 | chr7:15884061-16799788 | Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 56 gene(s) | inside rSNPs | diseases |
| 2 | nsv1028125 | chr7:16529160-16847225 | Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 40 gene(s) | inside rSNPs | diseases |
| 3 | nsv887757 | chr7:16568529-16615490 | Enhancers Active TSS Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
| 4 | nsv970401 | chr7:16580662-16583821 | Enhancers Weak transcription | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 5 | nsv520493 | chr7:16581890-16584470 | Enhancers Weak transcription | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6945188 | SOSTDC1 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:16581000-16584400 | Enhancers | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
