Variant report

Variant	rs6778223
Chromosome Location	chr3:85638391-85638392
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs1014796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1030720	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10433499	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10433525	0.91[ASN][1000 genomes]
rs10511078	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10865609	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10865611	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11127897	0.91[ASN][1000 genomes]
rs11127898	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11714549	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.88[YRI][hapmap]
rs12054328	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12487446	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs12489307	0.92[TSI][hapmap]
rs12491722	0.89[ASN][1000 genomes]
rs12492753	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12494446	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12629607	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[ASN][1000 genomes]
rs12631046	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12638798	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12639001	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs12639564	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1375556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1375562	0.84[TSI][hapmap]
rs1375566	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1433710	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[EUR][1000 genomes]
rs1433713	0.81[CEU][hapmap];0.91[EUR][1000 genomes]
rs1449386	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1449401	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1449402	0.91[ASN][1000 genomes]
rs1449403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1465716	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.88[YRI][hapmap];0.83[EUR][1000 genomes]
rs1551042	0.91[ASN][1000 genomes]
rs1551044	0.91[ASN][1000 genomes]
rs1594795	0.88[EUR][1000 genomes]
rs17023019	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap]
rs17023032	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17455991	0.91[ASN][1000 genomes]
rs17460569	0.80[CEU][hapmap]
rs1868533	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1900916	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1900917	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1972994	0.81[AFR][1000 genomes]
rs1992967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2017293	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.88[YRI][hapmap]
rs2029134	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2044723	0.91[ASN][1000 genomes]
rs2044725	1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2077839	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2163970	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs2167043	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2326315	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2326319	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2326381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2875907	1.00[CHD][hapmap]
rs4637303	0.91[ASN][1000 genomes]
rs4856272	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4856274	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4856278	1.00[CHB][hapmap];0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4856582	0.81[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs4856584	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4856597	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4856598	0.91[ASN][1000 genomes]
rs4856599	0.92[TSI][hapmap]
rs55753638	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60541362	0.91[ASN][1000 genomes]
rs62250501	0.91[ASN][1000 genomes]
rs62250537	0.91[ASN][1000 genomes]
rs62250710	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62252517	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6549027	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6549030	0.91[ASN][1000 genomes]
rs6549031	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6772750	0.83[EUR][1000 genomes]
rs6781515	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap]
rs6782190	0.91[ASN][1000 genomes]
rs6807461	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807666	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6810225	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs726610	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[ASN][1000 genomes]
rs734298	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7614552	0.91[ASN][1000 genomes]
rs7617323	0.91[ASN][1000 genomes]
rs7618124	0.86[ASN][1000 genomes]
rs7618494	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7623369	0.83[EUR][1000 genomes]
rs7623474	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7640828	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7647981	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7651113	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7652808	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs892365	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.96[TSI][hapmap];0.88[YRI][hapmap]
rs9309978	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[EUR][1000 genomes]
rs9824071	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.88[YRI][hapmap]
rs9825345	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs9831848	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9843953	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9846153	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9854888	0.82[EUR][1000 genomes]
rs9864170	0.85[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1002238	chr3:85357855-85719373	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536619	chr3:85357855-85719373	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv998829	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv536622	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv526621	chr3:85470642-85667683	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1009927	chr3:85497666-85669155	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1006360	chr3:85597755-85683081	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv536629	chr3:85597755-85683081	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1011376	chr3:85599411-85657771	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv590907	chr3:85619451-85694987	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv877101	chr3:85619451-85710336	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85634400-85640800	Weak transcription	Brain Anterior Caudate	brain
2	chr3:85637600-85638800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:85637800-85638600	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr3:85637800-85638800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:85637800-85638800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:85637800-85638800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:85637800-85638800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:85637800-85638800	Enhancers	NH-A	brain
9	chr3:85637800-85639200	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:85638000-85638400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:85638200-85638400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:85638200-85638600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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