Variant report

Variant	rs6828628
Chromosome Location	chr4:86464867-86464868
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs10013096	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10026950	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10027024	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516749	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516750	0.82[JPT][hapmap]
rs10516751	1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1156516	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11931565	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11932352	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11936036	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11936794	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11937495	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11940831	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs11942163	0.86[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11945019	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs11945092	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs13114627	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13115058	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1481772	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1481773	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1481776	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1481777	0.90[AFR][1000 genomes]
rs1481782	1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1481783	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1540595	0.97[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs1548105	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1548106	1.00[JPT][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1548108	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17010302	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010307	0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs17010311	0.85[JPT][hapmap];0.84[YRI][hapmap]
rs17010314	0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs17010316	0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs17010318	0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs17010321	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010342	0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010356	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010358	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010365	0.93[YRI][hapmap];0.90[AFR][1000 genomes]
rs17010377	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010389	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs17010393	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010402	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17010406	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1905033	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1905035	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1905036	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1982699	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1982700	1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs1982701	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994062	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs1994063	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994064	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs1994066	0.90[AMR][1000 genomes]
rs1994067	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994069	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994070	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994071	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994072	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994073	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1994074	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2086533	1.00[ASN][1000 genomes]
rs2086535	1.00[ASN][1000 genomes]
rs2101117	1.00[ASN][1000 genomes]
rs2101118	1.00[ASN][1000 genomes]
rs2101119	1.00[ASN][1000 genomes]
rs2101120	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2128091	1.00[ASN][1000 genomes]
rs2128093	1.00[ASN][1000 genomes]
rs2128095	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2128096	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2128098	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2128099	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2170419	1.00[CEU][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2200050	1.00[ASN][1000 genomes]
rs2869351	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2869353	1.00[ASN][1000 genomes]
rs2869354	1.00[ASN][1000 genomes]
rs2869356	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2869359	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3919901	0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs3960322	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4306948	1.00[ASN][1000 genomes]
rs4327478	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4327479	1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4348085	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4391024	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs4431218	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4440206	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs4450923	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4450924	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4450925	1.00[CEU][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4466034	1.00[ASN][1000 genomes]
rs4467559	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4525966	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535330	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4693116	1.00[ASN][1000 genomes]
rs4693706	1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4693707	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs58330660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59472265	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60617422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61658381	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6531826	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6531828	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6531829	0.97[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6814596	0.97[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6814983	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6819251	0.93[YRI][hapmap];0.90[AFR][1000 genomes]
rs6819986	0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6828388	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6829120	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6829628	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6836668	0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6841899	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72654089	1.00[ASN][1000 genomes]
rs72654093	1.00[ASN][1000 genomes]
rs72967858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72967871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73832792	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73832798	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73832799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7671915	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7679025	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7684170	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7684562	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7685458	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7685580	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7690205	0.93[YRI][hapmap];0.88[AFR][1000 genomes]
rs9307004	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9307005	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs931179	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs931180	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs964836	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs971422	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs971423	1.00[ASN][1000 genomes]
rs971424	1.00[ASN][1000 genomes]
rs971425	1.00[ASN][1000 genomes]
rs971426	1.00[ASN][1000 genomes]
rs9999410	0.85[AFR][1000 genomes];1.00[ASN][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	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86430200-86468600	Weak transcription	Pancreas	Pancrea
2	chr4:86452200-86465000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr4:86454000-86476600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:86454600-86471800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:86454800-86471800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr4:86457800-86470400	Weak transcription	Primary B cells from cord blood	blood
7	chr4:86458200-86466600	Weak transcription	Right Atrium	heart
8	chr4:86461000-86476600	Weak transcription	Left Ventricle	heart
9	chr4:86464200-86465400	Enhancers	Primary B cells from peripheral blood	blood
10	chr4:86464200-86465800	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr4:86464600-86465000	Enhancers	HSMM	muscle
12	chr4:86464600-86465400	Enhancers	HSMMtube	muscle
13	chr4:86464600-86476400	Weak transcription	Gastric	stomach
14	chr4:86464800-86465200	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr4:86464800-86465400	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr4:86464800-86465400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr4:86464800-86469600	Weak transcription	Fetal Heart	heart

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