Variant report

Variant	rs3805959
Chromosome Location	chr6:70641461-70641462
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12110870	0.98[ASN][1000 genomes]
rs1361518	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap];0.94[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1934904	0.82[ASW][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.84[JPT][hapmap];0.89[ASN][1000 genomes]
rs2273426	0.89[CHB][hapmap];0.84[JPT][hapmap]
rs2345744	0.89[ASN][1000 genomes]
rs3793031	0.95[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3793032	1.00[ASW][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.89[LWK][hapmap];0.83[MKK][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3793033	0.94[CHB][hapmap];0.92[JPT][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3793035	0.88[ASW][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs3805963	0.94[ASW][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[ASN][1000 genomes]
rs3805965	0.84[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805967	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805978	0.94[CHB][hapmap];0.84[JPT][hapmap];0.89[ASN][1000 genomes]
rs4036075	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56293172	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs58134065	0.98[ASN][1000 genomes]
rs59501442	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs59599861	0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs60134810	0.84[AFR][1000 genomes]
rs6455351	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6455352	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6455353	0.89[ASN][1000 genomes]
rs6899719	0.90[ASN][1000 genomes]
rs6903421	1.00[ASW][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.92[JPT][hapmap];0.95[LWK][hapmap];0.93[MKK][hapmap];0.88[YRI][hapmap];0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6910162	0.89[ASN][1000 genomes]
rs6912321	0.89[ASN][1000 genomes]
rs6935585	0.94[CHB][hapmap];0.89[ASN][1000 genomes]
rs6938495	1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[JPT][hapmap];0.88[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73480070	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73484256	0.87[ASN][1000 genomes]
rs7742627	1.00[ASW][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];0.95[LWK][hapmap];0.93[MKK][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7751448	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7756062	0.94[CHB][hapmap];0.95[CHD][hapmap];0.89[ASN][1000 genomes]
rs9294855	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9346367	0.89[CHB][hapmap];0.83[CHD][hapmap];0.84[JPT][hapmap]
rs9351779	0.83[CHB][hapmap];0.80[JPT][hapmap]
rs9354904	0.89[CHB][hapmap];0.84[JPT][hapmap]
rs9360410	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[ASN][1000 genomes]
rs9446168	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9446171	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];0.82[JPT][hapmap];0.91[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9446172	0.94[CHB][hapmap];0.92[CHD][hapmap];0.82[JPT][hapmap];0.97[ASN][1000 genomes]
rs9454909	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9454912	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9454919	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454930	0.94[CHB][hapmap];0.84[JPT][hapmap];0.97[ASN][1000 genomes]
rs9454932	0.89[ASN][1000 genomes]
rs9454935	0.83[ASW][hapmap];0.94[CHB][hapmap];0.95[CHD][hapmap];0.87[ASN][1000 genomes]
rs9454937	0.94[CHB][hapmap];0.88[ASN][1000 genomes]
rs9454944	0.89[CHB][hapmap];0.85[CHD][hapmap];0.84[JPT][hapmap]
rs978290	0.84[CHB][hapmap];0.82[CHD][hapmap];0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886140	chr6:70354682-70728202	Strong transcription Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv886141	chr6:70590638-70694162	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1026151	chr6:70621616-70946967	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv463151	chr6:70625166-70694162	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv603636	chr6:70625166-70694162	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	1 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	chr6:70625600-70642200	Weak transcription	Fetal Heart	heart
2	chr6:70638200-70648400	Weak transcription	GM12878-XiMat	blood
3	chr6:70640000-70642800	Weak transcription	Primary B cells from cord blood	blood
4	chr6:70640400-70642200	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:70641400-70643200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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