Variant report

Variant	rs12489219
Chromosome Location	chr3:51326451-51326452
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10510757	0.94[MEX][hapmap];0.87[TSI][hapmap]
rs12485331	0.84[EUR][1000 genomes]
rs12485754	0.84[EUR][1000 genomes]
rs12487468	0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.83[AMR][1000 genomes]
rs12487496	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12489414	0.81[AMR][1000 genomes]
rs12490026	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12490889	0.81[AMR][1000 genomes]
rs12491836	0.89[EUR][1000 genomes]
rs12492615	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs12492690	0.89[EUR][1000 genomes]
rs12493034	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12493323	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12493978	0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap]
rs12494979	0.81[AMR][1000 genomes]
rs12495561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12496830	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1809388	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1842394	0.88[CHB][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2061949	0.94[MEX][hapmap]
rs2086395	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2101056	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2127654	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2170177	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306430	0.83[CHB][hapmap]
rs2306431	0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs2355946	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3762711	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3828395	0.83[CHB][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap]
rs4130473	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs4346580	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs4468966	0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.82[AMR][1000 genomes]
rs4687811	0.81[AMR][1000 genomes]
rs4927961	0.89[EUR][1000 genomes]
rs4974096	0.83[CHB][hapmap];0.83[CHD][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs4974100	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56052360	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57406588	0.89[EUR][1000 genomes]
rs57603251	0.81[AMR][1000 genomes]
rs58201844	0.82[AMR][1000 genomes]
rs58911602	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59129045	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59682667	0.89[EUR][1000 genomes]
rs59834534	0.89[EUR][1000 genomes]
rs60128296	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60461297	0.89[EUR][1000 genomes]
rs60567238	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60740654	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61660900	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6792254	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72936442	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72936462	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72941919	0.89[EUR][1000 genomes]
rs72943166	0.89[EUR][1000 genomes]
rs72948197	0.89[EUR][1000 genomes]
rs72948200	0.89[EUR][1000 genomes]
rs72953143	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72953162	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72953175	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs751076	0.83[CHD][hapmap];0.89[MEX][hapmap];0.87[TSI][hapmap];0.80[AMR][1000 genomes]
rs880478	0.83[CHB][hapmap];0.80[AMR][1000 genomes]
rs9817077	1.00[CEU][hapmap];0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9817872	1.00[CEU][hapmap];0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9819195	0.83[CHB][hapmap];0.83[CHD][hapmap];0.87[TSI][hapmap];0.82[AMR][1000 genomes]
rs9829057	0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.82[AMR][1000 genomes]
rs9856134	0.83[CHB][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes]
rs9878592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51315400-51350000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:51318200-51328600	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr3:51322600-51329000	Weak transcription	Brain Angular Gyrus	brain
4	chr3:51322800-51327800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr3:51324400-51326800	ZNF genes & repeats	Fetal Brain Female	brain

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