Variant report

Variant	rs9883252
Chromosome Location	chr3:85138818-85138819
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10433523	0.86[CHB][hapmap];0.82[EUR][1000 genomes]
rs11127873	0.81[EUR][1000 genomes]
rs11127876	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11127877	0.86[CHB][hapmap]
rs11127880	1.00[CHB][hapmap]
rs11127882	0.85[CHB][hapmap]
rs11127883	0.82[CHB][hapmap]
rs11713170	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12053927	0.85[CHB][hapmap]
rs12486784	0.82[CHB][hapmap]
rs12486846	0.85[CHB][hapmap]
rs12488308	0.82[CHB][hapmap]
rs13059053	0.85[ASN][1000 genomes]
rs13061527	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13064817	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13078494	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13095644	0.81[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13097560	1.00[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13101042	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1349602	0.85[CHB][hapmap]
rs1376936	0.85[CHB][hapmap]
rs1376938	0.85[CHB][hapmap]
rs1452126	0.85[CHB][hapmap]
rs1452127	0.82[CHB][hapmap]
rs1545926	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1968691	0.85[CHB][hapmap]
rs2034619	0.82[CHB][hapmap]
rs2167606	0.82[CHB][hapmap]
rs2171140	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2171141	0.85[CHB][hapmap]
rs2200464	0.82[EUR][1000 genomes]
rs2220244	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs34201102	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4410457	0.81[EUR][1000 genomes]
rs4516626	0.85[CEU][hapmap];0.85[AMR][1000 genomes]
rs4635723	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6549011	0.81[EUR][1000 genomes]
rs6549012	0.86[CHB][hapmap];0.81[EUR][1000 genomes]
rs6549016	0.89[ASN][1000 genomes]
rs66500121	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6765011	0.86[CHB][hapmap];0.81[EUR][1000 genomes]
rs6775752	1.00[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6789415	0.85[CHB][hapmap]
rs6790864	0.81[EUR][1000 genomes]
rs6791035	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6796256	1.00[CHB][hapmap]
rs6796393	0.85[CHB][hapmap];0.81[EUR][1000 genomes]
rs6798922	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs6799730	0.85[CHB][hapmap]
rs6808586	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs7623714	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7628129	0.83[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7630177	0.85[CHB][hapmap]
rs7630382	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7632628	1.00[CHB][hapmap]
rs7635613	0.82[CHB][hapmap]
rs7636138	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs9284802	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9309969	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9309970	1.00[CHB][hapmap]
rs959236	0.87[ASN][1000 genomes]
rs9681960	0.85[CHB][hapmap]
rs9810830	0.82[CHB][hapmap]
rs9813787	0.85[CHB][hapmap]
rs9814600	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9814835	0.85[CHB][hapmap];0.81[EUR][1000 genomes]
rs9818067	0.82[CHB][hapmap]
rs9819278	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9820587	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs9835904	0.83[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9838091	0.83[CEU][hapmap];0.85[AMR][1000 genomes]
rs9839194	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9846802	0.85[AMR][1000 genomes]
rs9866167	0.82[CHB][hapmap]
rs9875381	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9878472	0.82[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9882148	0.82[CHB][hapmap]
rs9882296	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv877093	chr3:85101501-85194054	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv590897	chr3:85122624-85187085	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85132000-85140400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:85132000-85141600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:85137200-85139800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:85137800-85140000	Weak transcription	Brain Anterior Caudate	brain
5	chr3:85138800-85139000	Enhancers	Brain Hippocampus Middle	brain
6	chr3:85138800-85139000	Enhancers	Brain Substantia Nigra	brain

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