Variant report

Variant	rs1546037
Chromosome Location	chr3:79434134-79434135
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs11919036	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12487699	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12487760	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12487773	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12492191	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12496262	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12497294	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12633213	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12714476	0.92[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs13058752	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13063721	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13072219	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13076006	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs13083179	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs13090440	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1387663	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1387664	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1489846	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs17396958	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17397244	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2101530	0.83[ASN][1000 genomes]
rs2311046	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2871632	0.86[ASN][1000 genomes]
rs34671557	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35709232	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35924478	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3934852	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4130991	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4234350	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4258922	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4284943	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4447719	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4452292	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4510348	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4513416	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4524244	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4535190	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4550794	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4680960	0.88[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs4680961	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4680962	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6768939	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6770755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6772426	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6772464	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs6773975	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs6784825	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs6784911	0.95[CHB][hapmap]
rs6798357	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6802848	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs6805334	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs6809910	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7617893	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs7624099	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7628757	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7632115	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7638156	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7639769	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7640053	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7646230	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7651370	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7653197	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9810404	0.89[CEU][hapmap]
rs9832405	0.81[JPT][hapmap]
rs9853257	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9867953	0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[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	esv2763281	chr3:79246361-79489765	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	esv3381015	chr3:79425678-79545174	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv998248	chr3:79426615-79554963	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79433000-79434600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:79433000-79435800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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