Variant report

Variant	rs2290339
Chromosome Location	chr3:85362016-85362017
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10511088	0.85[CEU][hapmap];0.93[JPT][hapmap];0.94[YRI][hapmap];0.85[ASN][1000 genomes]
rs11127880	0.85[CHB][hapmap]
rs11127882	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs11127883	1.00[CHB][hapmap]
rs11127884	1.00[CHB][hapmap];0.84[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12053927	0.85[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[YRI][hapmap]
rs12233500	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12486784	1.00[CHB][hapmap]
rs12486846	1.00[CHB][hapmap]
rs12488308	1.00[CHB][hapmap]
rs13433706	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1349602	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs1376936	1.00[CHB][hapmap]
rs1376938	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1452122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1452123	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1452126	0.85[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs1452127	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap]
rs1545926	0.85[CHB][hapmap];0.94[YRI][hapmap]
rs17022559	0.83[ASN][1000 genomes]
rs1968691	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[YRI][hapmap];0.85[ASN][1000 genomes]
rs2034619	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap]
rs2167606	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap]
rs2220244	0.82[CHB][hapmap];0.83[YRI][hapmap]
rs34023668	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59530274	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6775792	1.00[CHB][hapmap]
rs6780644	1.00[CHB][hapmap]
rs6789415	1.00[CHB][hapmap]
rs6796256	0.85[CHB][hapmap]
rs6799730	1.00[CHB][hapmap]
rs72909103	0.85[ASN][1000 genomes]
rs72917131	0.86[ASN][1000 genomes]
rs72919228	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7625784	0.88[ASN][1000 genomes]
rs7630177	1.00[CHB][hapmap]
rs7632628	0.82[CHB][hapmap]
rs7635613	1.00[CHB][hapmap]
rs7637876	0.82[CHB][hapmap]
rs818213	0.91[AFR][1000 genomes]
rs818216	1.00[CHB][hapmap]
rs818217	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs818218	1.00[CHB][hapmap]
rs818222	1.00[CHB][hapmap]
rs818226	1.00[CHB][hapmap]
rs9309970	0.85[CHB][hapmap]
rs959236	0.94[YRI][hapmap]
rs9681960	1.00[CHB][hapmap]
rs9810830	1.00[CHB][hapmap]
rs9813787	1.00[CHB][hapmap]
rs9818067	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[YRI][hapmap];0.83[ASN][1000 genomes]
rs9830622	0.83[ASN][1000 genomes]
rs9866167	1.00[CHB][hapmap]
rs9882148	1.00[CHB][hapmap]
rs9882296	1.00[CHB][hapmap]
rs994237	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 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	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
4	nsv877096	chr3:85163167-85366517	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv460747	chr3:85163167-85391672	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv590899	chr3:85163167-85391672	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1012601	chr3:85246185-85426996	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv536618	chr3:85246185-85426996	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv948806	chr3:85304744-85463443	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1013407	chr3:85307022-85460325	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
11	nsv870153	chr3:85326695-85426936	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv522622	chr3:85352957-85366517	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	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
14	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

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85352000-85365800	Weak transcription	Brain Cingulate Gyrus	brain
2	chr3:85352600-85366000	Weak transcription	Fetal Brain Male	brain
3	chr3:85353000-85366600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:85355600-85368600	Weak transcription	Brain Anterior Caudate	brain
5	chr3:85359600-85366000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr3:85359800-85366000	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:85360000-85365400	Weak transcription	Brain Substantia Nigra	brain

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