Variant report

Variant	rs1606931
Chromosome Location	chr2:190130694-190130695
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:190086028..190087990-chr2:190129145..190131338,2	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10164448	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10193669	1.00[JPT][hapmap]
rs10194053	1.00[JPT][hapmap]
rs10196323	1.00[JPT][hapmap]
rs10196675	1.00[JPT][hapmap]
rs10198505	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10202907	1.00[JPT][hapmap]
rs10206086	1.00[JPT][hapmap]
rs10755003	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10931409	0.88[EUR][1000 genomes]
rs13388366	1.00[JPT][hapmap]
rs13392978	1.00[JPT][hapmap]
rs13427051	1.00[JPT][hapmap]
rs13428976	1.00[JPT][hapmap]
rs13429203	1.00[JPT][hapmap]
rs13430879	1.00[JPT][hapmap]
rs13430915	1.00[JPT][hapmap]
rs1464136	0.84[AFR][1000 genomes]
rs1464262	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1473999	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1515867	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16831217	1.00[EUR][1000 genomes]
rs16831356	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16841601	1.00[EUR][1000 genomes]
rs17270980	1.00[EUR][1000 genomes]
rs2030293	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2102874	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2176649	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2351634	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2683011	0.88[EUR][1000 genomes]
rs4031918	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4494782	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4666773	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56920210	0.91[EUR][1000 genomes]
rs58288282	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58796942	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6414123	0.92[AFR][1000 genomes]
rs6434335	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6724646	1.00[JPT][hapmap]
rs6725458	1.00[JPT][hapmap]
rs6728197	1.00[JPT][hapmap]
rs6737615	1.00[JPT][hapmap]
rs6740926	1.00[JPT][hapmap]
rs6740999	1.00[JPT][hapmap]
rs6754272	1.00[JPT][hapmap]
rs6761847	0.90[AFR][1000 genomes]
rs73978612	0.91[EUR][1000 genomes]
rs73978617	0.97[EUR][1000 genomes]
rs73978620	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73978626	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73978632	0.91[EUR][1000 genomes]
rs73978633	0.91[EUR][1000 genomes]
rs73982009	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73982031	0.84[EUR][1000 genomes]
rs7572416	1.00[JPT][hapmap]
rs7577872	0.85[AFR][1000 genomes]
rs7582435	0.85[AFR][1000 genomes]
rs7586032	1.00[JPT][hapmap]
rs7591652	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7596033	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7599216	0.85[AFR][1000 genomes]
rs7606355	0.90[AFR][1000 genomes]
rs870921	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs870922	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs939157	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs939159	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1014747	chr2:190097979-190132854	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190123200-190132200	Weak transcription	Pancreas	Pancrea
2	chr2:190126600-190132200	Weak transcription	NH-A	brain
3	chr2:190126600-190132400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:190126800-190132000	Weak transcription	Osteobl	bone
5	chr2:190127000-190132000	Weak transcription	NHLF	lung
6	chr2:190127200-190131800	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr2:190127200-190133200	Weak transcription	Fetal Lung	lung
8	chr2:190130200-190132000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr2:190130200-190132000	Weak transcription	HSMM	muscle
10	chr2:190130600-190130800	Enhancers	NHDF-Ad	bronchial
11	chr2:190130600-190131800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr2:190130600-190131800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links