Variant report

Variant	rs7643802
Chromosome Location	chr3:85197969-85197970
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10490896	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10490897	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10865606	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12486810	1.00[CEU][hapmap]
rs12487214	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12487780	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12487784	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12489229	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12491352	1.00[JPT][hapmap]
rs12491707	1.00[JPT][hapmap]
rs12491943	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12492245	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12494948	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12495761	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12496274	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12497304	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12497411	1.00[JPT][hapmap]
rs12498133	1.00[JPT][hapmap]
rs1376937	0.88[YRI][hapmap]
rs17022387	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17022521	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs17022571	0.89[YRI][hapmap]
rs17022605	0.84[YRI][hapmap]
rs17022612	0.81[YRI][hapmap]
rs17022614	0.81[YRI][hapmap]
rs17022646	0.84[YRI][hapmap]
rs17022655	0.81[YRI][hapmap]
rs17022682	0.80[YRI][hapmap]
rs17022685	0.84[YRI][hapmap]
rs2167605	0.81[YRI][hapmap]
rs2200463	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2200465	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34992129	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55959108	0.92[ASN][1000 genomes]
rs57628546	0.82[AFR][1000 genomes]
rs58443333	0.92[ASN][1000 genomes]
rs58554319	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59147667	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59322652	0.92[ASN][1000 genomes]
rs60399717	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6549013	0.92[ASN][1000 genomes]
rs6770622	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6773806	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6774581	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6800224	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72903389	0.92[ASN][1000 genomes]
rs72905237	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72905254	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72907123	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72907139	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72907149	0.82[AFR][1000 genomes]
rs73843272	0.92[ASN][1000 genomes]
rs73843277	0.92[ASN][1000 genomes]
rs73843282	0.85[ASN][1000 genomes]
rs73843290	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7611119	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7618389	0.83[YRI][hapmap]
rs7643603	0.82[AFR][1000 genomes]
rs7644008	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs7648199	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9821283	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9917693	0.88[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	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
3	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877094	chr3:85124697-85253981	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv590898	chr3:85158733-85243777	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv877095	chr3:85163167-85290434	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv877096	chr3:85163167-85366517	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv460747	chr3:85163167-85391672	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv590899	chr3:85163167-85391672	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1001124	chr3:85167047-85309046	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv590900	chr3:85177049-85265011	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv877097	chr3:85177173-85290434	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv877098	chr3:85177173-85361645	ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv460748	chr3:85194054-85302473	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv460749	chr3:85194054-85302473	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv590901	chr3:85194054-85302473	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv470716	chr3:85194054-85316648	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85169200-85198600	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:85197200-85198200	Enhancers	Brain Anterior Caudate	brain
3	chr3:85197200-85198200	Enhancers	Brain Hippocampus Middle	brain
4	chr3:85197200-85198200	Enhancers	Brain Substantia Nigra	brain
5	chr3:85197400-85209600	Weak transcription	Stomach Mucosa	stomach
6	chr3:85197800-85199000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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