Variant report

Variant	rs900058
Chromosome Location	chr3:99114767-99114768
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs13067862	0.86[ASN][1000 genomes]
rs1383845	0.85[ASN][1000 genomes]
rs1383855	0.85[ASN][1000 genomes]
rs1383857	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1383858	0.85[ASN][1000 genomes]
rs1383859	0.85[ASN][1000 genomes]
rs1406542	0.85[ASN][1000 genomes]
rs1406543	0.85[ASN][1000 genomes]
rs1481530	0.85[ASN][1000 genomes]
rs1481531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1481541	0.85[ASN][1000 genomes]
rs1481542	0.85[ASN][1000 genomes]
rs1481545	0.85[ASN][1000 genomes]
rs1481546	0.85[ASN][1000 genomes]
rs1481547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1481548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1481549	0.85[ASN][1000 genomes]
rs1580367	0.85[ASN][1000 genomes]
rs1812813	0.80[ASN][1000 genomes]
rs1871790	0.85[ASN][1000 genomes]
rs1994036	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2062042	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2101107	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2128022	0.93[ASN][1000 genomes]
rs2128023	0.86[ASN][1000 genomes]
rs2219969	0.85[ASN][1000 genomes]
rs2219971	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2448967	0.85[ASN][1000 genomes]
rs2448969	0.85[ASN][1000 genomes]
rs2464138	0.85[ASN][1000 genomes]
rs2464139	0.85[ASN][1000 genomes]
rs2464148	0.85[ASN][1000 genomes]
rs2464150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2470690	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623319	0.85[ASN][1000 genomes]
rs2623320	0.85[ASN][1000 genomes]
rs2623321	0.85[ASN][1000 genomes]
rs2623324	0.85[ASN][1000 genomes]
rs2623325	0.85[ASN][1000 genomes]
rs2623326	0.85[ASN][1000 genomes]
rs2623327	0.85[ASN][1000 genomes]
rs2623328	0.85[ASN][1000 genomes]
rs2623329	0.85[ASN][1000 genomes]
rs2623330	0.85[ASN][1000 genomes]
rs2623331	0.85[ASN][1000 genomes]
rs2623332	0.85[ASN][1000 genomes]
rs2623333	0.85[ASN][1000 genomes]
rs2623334	0.85[ASN][1000 genomes]
rs2623336	0.82[ASN][1000 genomes]
rs2623338	0.85[ASN][1000 genomes]
rs2623339	0.85[ASN][1000 genomes]
rs2623340	0.85[ASN][1000 genomes]
rs2623342	0.85[ASN][1000 genomes]
rs2623344	0.85[ASN][1000 genomes]
rs2623345	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623346	0.85[ASN][1000 genomes]
rs2623347	0.85[ASN][1000 genomes]
rs2623348	0.85[ASN][1000 genomes]
rs2623349	0.85[ASN][1000 genomes]
rs2623350	0.85[ASN][1000 genomes]
rs2623351	0.85[ASN][1000 genomes]
rs2623359	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2623360	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2623361	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2623363	0.85[ASN][1000 genomes]
rs2623364	0.85[ASN][1000 genomes]
rs2623369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623370	0.93[ASN][1000 genomes]
rs2623371	0.85[ASN][1000 genomes]
rs2623372	0.85[ASN][1000 genomes]
rs2623373	0.85[ASN][1000 genomes]
rs2623374	1.00[CEU][hapmap]
rs2623375	0.85[ASN][1000 genomes]
rs2623377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2700589	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2700590	0.85[ASN][1000 genomes]
rs2700591	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2700592	0.85[ASN][1000 genomes]
rs2700593	0.85[ASN][1000 genomes]
rs2700594	0.85[ASN][1000 genomes]
rs2700595	0.85[ASN][1000 genomes]
rs2700602	0.85[ASN][1000 genomes]
rs2700606	0.80[ASN][1000 genomes]
rs2700607	0.87[ASN][1000 genomes]
rs2700608	0.85[ASN][1000 genomes]
rs2700609	0.89[ASN][1000 genomes]
rs2700610	0.85[ASN][1000 genomes]
rs2700611	0.85[ASN][1000 genomes]
rs2700612	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2700613	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2700614	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2700616	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2700622	0.85[ASN][1000 genomes]
rs2700623	0.85[ASN][1000 genomes]
rs2700624	0.85[ASN][1000 genomes]
rs2700625	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2700636	0.85[ASN][1000 genomes]
rs2700637	0.85[ASN][1000 genomes]
rs2700638	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2700642	0.85[ASN][1000 genomes]
rs2700644	0.87[ASN][1000 genomes]
rs2700646	0.85[ASN][1000 genomes]
rs2700649	0.85[ASN][1000 genomes]
rs2700668	1.00[CEU][hapmap]
rs2700671	0.85[ASN][1000 genomes]
rs2700672	0.85[ASN][1000 genomes]
rs2929433	0.85[ASN][1000 genomes]
rs2929434	0.85[ASN][1000 genomes]
rs2929435	0.85[ASN][1000 genomes]
rs2929436	0.87[ASN][1000 genomes]
rs2929437	0.85[ASN][1000 genomes]
rs2929438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2929441	0.85[ASN][1000 genomes]
rs2929442	0.85[ASN][1000 genomes]
rs2929444	0.85[ASN][1000 genomes]
rs2951490	0.85[ASN][1000 genomes]
rs2951491	0.85[ASN][1000 genomes]
rs2951492	0.85[ASN][1000 genomes]
rs2960090	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2960092	0.85[ASN][1000 genomes]
rs2960093	0.85[ASN][1000 genomes]
rs34794291	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4365660	0.85[ASN][1000 genomes]
rs4530567	0.85[ASN][1000 genomes]
rs6440538	0.86[ASN][1000 genomes]
rs6807371	0.85[ASN][1000 genomes]
rs71313533	0.86[ASN][1000 genomes]
rs744189	0.85[ASN][1000 genomes]
rs767808	0.85[ASN][1000 genomes]
rs969004	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs980842	0.83[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	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv530026	chr3:98837320-99340537	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv877216	chr3:99065296-99161022	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99105000-99116800	Weak transcription	Aorta	Aorta
2	chr3:99112600-99115200	Enhancers	NH-A	brain
3	chr3:99112600-99116200	Enhancers	NHLF	lung
4	chr3:99112600-99116400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:99112800-99116200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:99113000-99116000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr3:99113000-99116000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:99113200-99115400	Enhancers	HSMM	muscle
9	chr3:99113200-99116200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:99113600-99115200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:99113600-99115200	Enhancers	HSMMtube	muscle
12	chr3:99113800-99116400	Enhancers	Osteobl	bone
13	chr3:99114000-99115000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr3:99114000-99116800	Enhancers	NHDF-Ad	bronchial
15	chr3:99114200-99115200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:99114400-99115600	Enhancers	HMEC	breast
17	chr3:99114600-99114800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:99114600-99114800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
19	chr3:99114600-99114800	Flanking Active TSS	NHEK	skin
20	chr3:99114600-99115000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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