Variant report

Variant	rs73164796
Chromosome Location	chr3:17706207-17706208
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 113 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs11914537	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11914797	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11915560	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11916424	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11916984	1.00[EUR][1000 genomes]
rs11921699	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11922861	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11923635	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11924147	1.00[EUR][1000 genomes]
rs11924560	1.00[EUR][1000 genomes]
rs11925226	1.00[EUR][1000 genomes]
rs11925353	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11926072	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11926087	1.00[EUR][1000 genomes]
rs11926251	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11927232	1.00[EUR][1000 genomes]
rs11927283	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11927769	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11927967	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11929046	1.00[EUR][1000 genomes]
rs11929521	1.00[EUR][1000 genomes]
rs12106899	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12106900	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12107061	1.00[EUR][1000 genomes]
rs12152509	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12185952	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs28525383	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57352109	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58152540	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58392667	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58777809	1.00[EUR][1000 genomes]
rs58848058	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58921548	1.00[EUR][1000 genomes]
rs59582994	0.87[AMR][1000 genomes]
rs59891221	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59960076	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60245392	1.00[EUR][1000 genomes]
rs60459720	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60662240	1.00[EUR][1000 genomes]
rs60803166	1.00[EUR][1000 genomes]
rs60838916	1.00[EUR][1000 genomes]
rs60940413	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs61650046	1.00[EUR][1000 genomes]
rs61698855	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6577595	1.00[EUR][1000 genomes]
rs6577629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6763348	1.00[EUR][1000 genomes]
rs6789382	1.00[EUR][1000 genomes]
rs6796915	1.00[EUR][1000 genomes]
rs73160940	0.87[AMR][1000 genomes]
rs73160942	0.87[AMR][1000 genomes]
rs73160943	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73160950	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73160951	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73160957	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73160959	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73160964	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73160967	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73161452	1.00[EUR][1000 genomes]
rs73164768	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73164787	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165722	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165729	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73165734	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73165735	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73165736	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165740	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165743	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165752	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165764	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73165771	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165774	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165775	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165777	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165779	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73165792	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73165798	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73166516	1.00[EUR][1000 genomes]
rs73166544	1.00[EUR][1000 genomes]
rs73167503	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73167510	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73167513	1.00[EUR][1000 genomes]
rs73167514	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73167523	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73167527	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73168748	1.00[EUR][1000 genomes]
rs73168752	1.00[EUR][1000 genomes]
rs73170844	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73170845	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73170855	1.00[EUR][1000 genomes]
rs73170858	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73170877	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73170878	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73172909	1.00[EUR][1000 genomes]
rs73172914	1.00[EUR][1000 genomes]
rs73172924	1.00[EUR][1000 genomes]
rs7619879	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7620585	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7621577	1.00[EUR][1000 genomes]
rs7630381	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7631803	1.00[EUR][1000 genomes]
rs7648122	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9680896	1.00[EUR][1000 genomes]
rs9754654	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9754657	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9941993	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9968236	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999460	chr3:17360261-17720103	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv536510	chr3:17360261-17720103	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1013069	chr3:17560456-17783372	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv1849856	chr3:17646794-17748688	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv1828838	chr3:17646794-17757960	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv999594	chr3:17690416-17982318	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17681800-17714400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:17694400-17721800	Weak transcription	A549	lung
3	chr3:17697600-17707000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:17698600-17706600	Weak transcription	Left Ventricle	heart
5	chr3:17702200-17718400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:17702200-17719000	Weak transcription	Dnd41	blood
7	chr3:17703000-17714200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:17704600-17706800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr3:17705600-17707400	Enhancers	Brain Cingulate Gyrus	brain
10	chr3:17705800-17708000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:17705800-17712600	Weak transcription	HUVEC	blood vessel
12	chr3:17706000-17707000	Enhancers	Primary B cells from peripheral blood	blood
13	chr3:17706000-17707600	Enhancers	Brain Substantia Nigra	brain
14	chr3:17706000-17708200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:17706200-17706400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:17706200-17706400	Enhancers	Brain Anterior Caudate	brain
17	chr3:17706200-17706600	Enhancers	Primary hematopoietic stem cells	blood
18	chr3:17706200-17706800	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr3:17706200-17706800	Enhancers	Primary B cells from cord blood	blood
20	chr3:17706200-17706800	Enhancers	Adipose Nuclei	Adipose
21	chr3:17706200-17706800	Enhancers	Thymus	Thymus
22	chr3:17706200-17707000	Enhancers	Primary T cells from cord blood	blood
23	chr3:17706200-17707000	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr3:17706200-17707200	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr3:17706200-17707200	Enhancers	Brain Hippocampus Middle	brain
26	chr3:17706200-17707200	Enhancers	GM12878-XiMat	blood

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