Variant report

Variant	rs11128839
Chromosome Location	chr3:17703391-17703392
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17697081..17699650-chr3:17703020..17705438,2	K562	blood:
2	chr3:17701833..17704472-chr3:17708885..17710880,2	MCF-7	breast:

Extended variants
information (count: 160 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:154)

rs_ID	r²[population]
rs10510477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs10510478	1.00[CEU][hapmap]
rs11128836	1.00[CEU][hapmap]
rs11128837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11128838	1.00[CEU][hapmap]
rs11128841	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs11128843	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11128844	0.82[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs11128848	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs11128849	0.96[CEU][hapmap]
rs11128850	1.00[CEU][hapmap]
rs11128852	1.00[CEU][hapmap]
rs11719266	0.83[EUR][1000 genomes]
rs11927637	0.83[EUR][1000 genomes]
rs11927654	1.00[CEU][hapmap]
rs11929111	0.85[EUR][1000 genomes]
rs12487248	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12487916	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12488591	0.88[CEU][hapmap]
rs12497320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[EUR][1000 genomes]
rs12631291	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs12632570	0.85[EUR][1000 genomes]
rs12634674	0.86[EUR][1000 genomes]
rs13061771	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13065637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13071728	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13071934	0.85[EUR][1000 genomes]
rs13076724	1.00[CEU][hapmap]
rs13079096	0.93[CEU][hapmap]
rs13083917	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs13085167	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13095571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13096559	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13097908	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13320647	1.00[CEU][hapmap]
rs13321297	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17273111	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2033379	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2337387	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34297417	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34485427	0.86[EUR][1000 genomes]
rs34487714	0.85[EUR][1000 genomes]
rs34786175	0.84[EUR][1000 genomes]
rs34990533	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35642812	0.85[EUR][1000 genomes]
rs35697509	0.85[EUR][1000 genomes]
rs4128509	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4243835	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4243836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4243838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[EUR][1000 genomes]
rs4312680	1.00[CEU][hapmap]
rs4377510	1.00[CEU][hapmap]
rs4431138	0.85[EUR][1000 genomes]
rs4435674	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs4444738	0.86[EUR][1000 genomes]
rs4470554	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs4482690	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs4484221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4513482	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4566567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[EUR][1000 genomes]
rs4566568	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs4568172	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[EUR][1000 genomes]
rs4589965	0.86[EUR][1000 genomes]
rs4602424	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs4611850	0.92[CEU][hapmap]
rs4637311	1.00[CEU][hapmap]
rs4908939	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4908940	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs4908958	1.00[CEU][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4908963	0.84[EUR][1000 genomes]
rs4908964	0.85[EUR][1000 genomes]
rs4908965	1.00[CEU][hapmap]
rs4908966	0.85[EUR][1000 genomes]
rs4908967	1.00[CEU][hapmap]
rs4908969	0.84[EUR][1000 genomes]
rs4908971	1.00[CEU][hapmap]
rs4908973	0.80[EUR][1000 genomes]
rs4908987	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs4908992	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs4909009	0.86[EUR][1000 genomes]
rs4909010	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4909012	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[EUR][1000 genomes]
rs5014632	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs55701200	0.86[EUR][1000 genomes]
rs57309958	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs61081795	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6577597	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6577616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6577617	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6577619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6577622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs6577643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[EUR][1000 genomes]
rs6577644	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6768637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6779834	0.85[EUR][1000 genomes]
rs6784025	1.00[CEU][hapmap]
rs6788763	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6789697	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6792422	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs6795189	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs6796448	0.80[EUR][1000 genomes]
rs6797952	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs6803312	0.85[EUR][1000 genomes]
rs6804837	0.83[EUR][1000 genomes]
rs6807020	1.00[CEU][hapmap]
rs6809062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6810235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.85[EUR][1000 genomes]
rs7427588	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7431897	0.82[EUR][1000 genomes]
rs7609916	0.89[CEU][hapmap]
rs7617683	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7622878	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7627732	1.00[CEU][hapmap]
rs7630695	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7632240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7633601	0.86[EUR][1000 genomes]
rs7642860	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7647914	0.86[EUR][1000 genomes]
rs7647928	0.86[EUR][1000 genomes]
rs7651998	1.00[CEU][hapmap]
rs7652156	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs8179891	1.00[CEU][hapmap]
rs8179983	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[EUR][1000 genomes]
rs9310519	0.85[CEU][hapmap]
rs9310520	0.86[CEU][hapmap]
rs9310526	1.00[CEU][hapmap]
rs9310528	1.00[CEU][hapmap]
rs9681232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[EUR][1000 genomes]
rs9681617	0.84[EUR][1000 genomes]
rs9681644	0.86[CEU][hapmap]
rs9681893	0.84[EUR][1000 genomes]
rs9756494	1.00[CEU][hapmap]
rs9812199	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9812906	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9815204	1.00[CEU][hapmap]
rs9816920	0.84[EUR][1000 genomes]
rs9821318	1.00[CEU][hapmap]
rs9821955	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs9823064	0.96[CEU][hapmap]
rs9823767	1.00[CEU][hapmap]
rs9839588	1.00[CEU][hapmap]
rs9847461	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9847477	1.00[CEU][hapmap]
rs9853571	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs9855515	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9857910	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs9867064	0.81[EUR][1000 genomes]
rs9869999	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9878954	0.96[CEU][hapmap]
rs9880456	0.85[EUR][1000 genomes]
rs9880971	0.82[EUR][1000 genomes]
rs9881089	0.82[EUR][1000 genomes]
rs9881850	0.92[CEU][hapmap];1.00[CHB][hapmap]
rs9985472	1.00[JPT][hapmap]

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:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17668800-17706200	Weak transcription	Primary B cells from cord blood	blood
2	chr3:17681800-17714400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:17689200-17704000	Weak transcription	Primary B cells from peripheral blood	blood
4	chr3:17694400-17721800	Weak transcription	A549	lung
5	chr3:17695000-17706200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:17697600-17707000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:17697800-17705600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:17697800-17706200	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:17698000-17706000	Weak transcription	Brain Substantia Nigra	brain
10	chr3:17698600-17706000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:17698600-17706600	Weak transcription	Left Ventricle	heart
12	chr3:17702000-17705800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:17702200-17718400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:17702200-17719000	Weak transcription	Dnd41	blood
15	chr3:17702600-17706200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:17703000-17714200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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