Variant report
| Variant | rs886753 |
|---|---|
| Chromosome Location | chr7:16573046-16573047 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr7:16572903-16573094 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr7:16567383..16570360-chr7:16572174..16574613,3 | K562 | blood: | |
| 2 | chr7:16567461..16570360-chr7:16570875..16573674,2 | K562 | blood: | |
| 3 | chr7:16572386..16575354-chr7:16579474..16582374,2 | K562 | blood: | |
| 4 | chr7:16571964..16574427-chr7:16575853..16578398,3 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| SOSTDC1 | TF binding region |
| ENSG00000171243 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs10259803 | 1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[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 | 0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2014391 | 0.85[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs2108134 | 0.80[EUR][1000 genomes] |
| rs34000560 | 1.00[ASN][1000 genomes] |
| rs517529 | 0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6461263 | 0.94[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs6945188 | 0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6950712 | 1.00[ASN][1000 genomes] |
| rs6951596 | 1.00[ASN][1000 genomes] |
| rs6956385 | 1.00[ASN][1000 genomes] |
| rs6961390 | 0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6963649 | 0.94[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6968892 | 1.00[ASN][1000 genomes] |
| rs6969347 | 1.00[ASN][1000 genomes] |
| rs6974070 | 0.90[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6980285 | 0.86[EUR][1000 genomes] |
| rs7780726 | 1.00[ASN][1000 genomes] |
| rs7790525 | 1.00[ASN][1000 genomes] |
| rs7792294 | 0.94[CEU][hapmap] |
| rs886754 | 1.00[CEU][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[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 | nsv1034151 | chr7:16415497-16578081 | ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive region | 11 gene(s) | inside rSNPs | diseases |
| 3 | 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 |
| 4 | esv2761304 | chr7:16568426-16576467 | Weak transcription Enhancers | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 5 | nsv887757 | chr7:16568529-16615490 | Enhancers Active TSS Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:16570000-16576600 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
| 2 | chr7:16571400-16574000 | Enhancers | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
