Variant report

Variant	rs4267675
Chromosome Location	chr3:51147807-51147808
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 179 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:175)

rs_ID	r²[population]
rs10212240	0.81[AMR][1000 genomes]
rs10212250	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs10865962	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs11130267	1.00[CEU][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs11130274	0.88[JPT][hapmap];0.81[MEX][hapmap];0.83[AMR][1000 genomes]
rs11715556	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs11919932	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12494165	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs12630889	0.84[AMR][1000 genomes]
rs13061003	0.94[CEU][hapmap]
rs13062018	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs13064199	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs13069365	0.88[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[TSI][hapmap]
rs13079136	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs13079565	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap]
rs13080170	0.94[CEU][hapmap]
rs13085827	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs13086922	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs13093289	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap]
rs13324500	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap]
rs1383252	0.86[JPT][hapmap]
rs1480357	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs1480358	0.88[JPT][hapmap];0.85[TSI][hapmap]
rs1480363	0.88[JPT][hapmap]
rs1552072	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs1552073	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs2061951	0.88[JPT][hapmap]
rs2355934	0.88[JPT][hapmap]
rs2355941	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs28470684	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34628582	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs4132022	0.94[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs4244696	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs4244697	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs4244700	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4244701	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4244702	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4244703	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4244704	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4263323	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4269109	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4286453	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4293735	0.83[AMR][1000 genomes]
rs4301044	0.88[JPT][hapmap];0.85[TSI][hapmap]
rs4309762	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4309763	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4317135	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4353834	0.82[EUR][1000 genomes]
rs4356848	0.94[CEU][hapmap]
rs4359843	0.83[AMR][1000 genomes]
rs4367101	0.88[JPT][hapmap];0.85[TSI][hapmap]
rs4373098	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap]
rs4377512	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4378999	0.88[JPT][hapmap]
rs4390967	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4438692	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs4443210	0.94[CEU][hapmap]
rs4444745	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4446244	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4453876	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs4464493	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4465974	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4478114	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4487270	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4488874	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4491946	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4505743	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4507294	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4511931	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs4511933	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4528983	0.86[JPT][hapmap]
rs4530566	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4532165	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs4555554	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs4566574	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs4568177	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs4572801	0.93[CEU][hapmap]
rs4582086	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4586853	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs4589968	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4613496	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4615113	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4927960	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs4927964	0.83[AMR][1000 genomes]
rs4927965	0.83[AMR][1000 genomes]
rs4927967	1.00[CHB][hapmap]
rs4927976	0.82[EUR][1000 genomes]
rs4927977	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4927978	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4927979	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4927980	0.85[EUR][1000 genomes]
rs4927982	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4927983	1.00[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4927984	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4927986	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4974095	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs4974109	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs6445455	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs6445551	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs6445600	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs6445717	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs6445750	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6445779	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6445802	1.00[CEU][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes]
rs6446011	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6446118	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6446167	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6446168	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6446243	0.94[CEU][hapmap]
rs6446245	0.94[CEU][hapmap]
rs6767329	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6768601	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs6769957	0.83[AMR][1000 genomes]
rs6771085	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs6772197	0.94[CEU][hapmap]
rs6772664	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs6775483	0.83[AMR][1000 genomes]
rs6777719	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs6779658	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs6787773	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6793613	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6793648	1.00[CEU][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6795272	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs6799211	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6806090	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6808206	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6809080	0.88[JPT][hapmap]
rs6809524	0.89[EUR][1000 genomes]
rs6810241	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs7427006	0.84[JPT][hapmap];0.90[YRI][hapmap]
rs7428086	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs7429035	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs7433217	0.94[CEU][hapmap]
rs7611873	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7614171	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs7614482	0.94[CEU][hapmap]
rs7614785	0.80[AMR][1000 genomes]
rs7614881	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs7615291	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7619584	0.88[JPT][hapmap]
rs7627266	0.94[CEU][hapmap]
rs7628533	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs7629420	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs7629433	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7630616	0.81[AMR][1000 genomes]
rs7630730	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes]
rs7638732	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs7639161	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7640263	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7644957	0.88[JPT][hapmap];0.85[TSI][hapmap]
rs7652655	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7652818	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7653451	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7653539	0.82[EUR][1000 genomes]
rs922612	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs9682672	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs9713241	1.00[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap]
rs9758600	1.00[CEU][hapmap]
rs9823942	1.00[CEU][hapmap]
rs9828200	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9832672	0.83[ASW][hapmap];0.83[YRI][hapmap]
rs9837334	0.94[CEU][hapmap]
rs9839860	0.83[AMR][1000 genomes]
rs9841339	0.83[AMR][1000 genomes]
rs9850021	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9855442	0.88[JPT][hapmap]
rs9857727	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap]
rs9858412	0.88[JPT][hapmap];0.85[TSI][hapmap]
rs9865363	0.82[EUR][1000 genomes]
rs9865532	0.94[CEU][hapmap]
rs9868870	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap]
rs9869123	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs9871539	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes]
rs9878100	0.88[JPT][hapmap];0.81[MEX][hapmap];0.85[TSI][hapmap]
rs9883739	0.88[JPT][hapmap]

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	nsv491647	chr3:50856276-51245158	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
4	esv3447639	chr3:51129523-51158383	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4267675	NCKIPSD	cis	cerebellum	SCAN
rs4267675	TMEM115	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51144400-51168000	Weak transcription	Brain Angular Gyrus	brain
2	chr3:51146000-51168000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:51147800-51148600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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