Variant report

Variant	rs4679867
Chromosome Location	chr3:159723903-159723904
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159479933..159482326-chr3:159723100..159725647,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250588	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11708713	0.94[EUR][1000 genomes]
rs11716424	0.94[EUR][1000 genomes]
rs11716451	0.94[EUR][1000 genomes]
rs1651081	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs1874886	0.94[EUR][1000 genomes]
rs2366643	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs2366644	0.93[EUR][1000 genomes]
rs2647928	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2647930	0.94[EUR][1000 genomes]
rs2647931	0.94[EUR][1000 genomes]
rs2914116	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs2936302	0.93[EUR][1000 genomes]
rs2936303	0.94[EUR][1000 genomes]
rs4580600	0.93[EUR][1000 genomes]
rs4680536	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4680538	0.93[EUR][1000 genomes]
rs4680539	0.80[EUR][1000 genomes]
rs480134	0.93[EUR][1000 genomes]
rs480913	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs483714	0.94[EUR][1000 genomes]
rs484600	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs485499	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs485789	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs491966	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs522127	0.94[EUR][1000 genomes]
rs523886	0.94[EUR][1000 genomes]
rs526734	0.91[EUR][1000 genomes]
rs545143	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs545232	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs547875	0.94[EUR][1000 genomes]
rs548018	0.94[EUR][1000 genomes]
rs55740284	0.93[ASN][1000 genomes]
rs564799	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs564976	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs571099	0.94[EUR][1000 genomes]
rs574808	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs579079	0.96[EUR][1000 genomes]
rs586094	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs587422	0.94[EUR][1000 genomes]
rs588998	0.94[EUR][1000 genomes]
rs589446	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs589545	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs600519	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs62270441	0.94[EUR][1000 genomes]
rs629209	0.94[EUR][1000 genomes]
rs6441288	0.96[CEU][hapmap]
rs6441289	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs6441290	0.94[EUR][1000 genomes]
rs669003	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs6771363	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs6808498	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs6808518	0.94[EUR][1000 genomes]
rs7640862	0.93[EUR][1000 genomes]
rs9290051	0.93[EUR][1000 genomes]
rs9845010	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829769	chr3:159606913-159805282	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv1806743	chr3:159723529-159744022	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159707200-159724200	Weak transcription	Psoas Muscle	Psoas
2	chr3:159711600-159724200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr3:159712000-159729600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr3:159713000-159734800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:159719800-159724200	Weak transcription	Brain Anterior Caudate	brain
6	chr3:159720000-159724200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:159720000-159724200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:159720200-159724200	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:159720800-159724000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:159721000-159724200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:159721000-159730000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:159721400-159724200	Weak transcription	Osteobl	bone
13	chr3:159721800-159724200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr3:159721800-159724200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:159722000-159724000	Weak transcription	NHLF	lung
16	chr3:159722800-159725000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:159722800-159725000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr3:159723400-159724800	Enhancers	GM12878-XiMat	blood
19	chr3:159723600-159724800	Enhancers	NHDF-Ad	bronchial
20	chr3:159723800-159724600	Enhancers	Fetal Muscle Leg	muscle
21	chr3:159723800-159724800	Enhancers	Primary hematopoietic stem cells short term culture	blood

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