Variant report

Variant	rs6798934
Chromosome Location	chr3:46156213-46156214
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46148560..46157677-chr3:46203034..46208483,12	MCF-7	breast:
2	chr3:46154708..46157691-chr3:46229895..46231641,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183625	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10049103	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1078355	0.84[AMR][1000 genomes]
rs12107160	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12107288	1.00[EUR][1000 genomes]
rs13325425	1.00[EUR][1000 genomes]
rs1352880	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1491954	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1846618	1.00[EUR][1000 genomes]
rs1873615	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2036294	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2036296	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2088691	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28393246	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28454181	1.00[EUR][1000 genomes]
rs4630978	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4682809	0.93[YRI][hapmap]
rs55743140	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56071453	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56738797	0.84[AMR][1000 genomes]
rs57375372	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57590663	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57768435	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57800045	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57887195	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58139750	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58402224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58969771	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59065510	1.00[EUR][1000 genomes]
rs59157393	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59676542	1.00[EUR][1000 genomes]
rs59754516	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60080146	0.84[AMR][1000 genomes]
rs61201782	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61276379	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61598729	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61686943	1.00[EUR][1000 genomes]
rs6788758	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6791693	0.80[AFR][1000 genomes]
rs6795629	0.93[YRI][hapmap]
rs72885402	0.84[AMR][1000 genomes]
rs72887108	0.84[AMR][1000 genomes]
rs72887131	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72887154	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72889737	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72889749	0.85[AFR][1000 genomes]
rs72889759	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891111	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891129	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72899100	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72904134	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830713	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833519	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7427033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs978316	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs978317	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9814908	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9830945	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831926	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9844424	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9852295	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9854654	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859291	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9871934	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9882976	1.00[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46146800-46164400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:46148400-46160200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:46149200-46158800	Enhancers	NHLF	lung
4	chr3:46149200-46159800	Enhancers	Placenta	Placenta
5	chr3:46150000-46157600	Enhancers	HMEC	breast
6	chr3:46150400-46158800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:46150600-46158600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:46151000-46158800	Weak transcription	Stomach Mucosa	stomach
9	chr3:46151200-46156400	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr3:46151800-46158200	Enhancers	NHDF-Ad	bronchial
11	chr3:46152000-46157400	Enhancers	NHEK	skin
12	chr3:46152600-46157000	Weak transcription	Fetal Stomach	stomach
13	chr3:46152600-46165200	Weak transcription	Spleen	Spleen
14	chr3:46152800-46158800	Enhancers	Hela-S3	cervix
15	chr3:46152800-46159400	Weak transcription	Lung	lung
16	chr3:46152800-46162400	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:46153000-46156600	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr3:46153000-46157800	Weak transcription	Fetal Lung	lung
19	chr3:46154000-46156800	Enhancers	HSMM	muscle
20	chr3:46154400-46156800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr3:46155200-46156800	Enhancers	Adipose Nuclei	Adipose
22	chr3:46155200-46157200	Enhancers	Osteobl	bone
23	chr3:46155400-46156400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:46155400-46156800	Enhancers	Muscle Satellite Cultured Cells	--
25	chr3:46155600-46156600	Enhancers	A549	lung
26	chr3:46155600-46156600	Enhancers	NH-A	brain
27	chr3:46155800-46156400	Enhancers	Primary B cells from cord blood	blood
28	chr3:46155800-46156400	Enhancers	Liver	Liver
29	chr3:46155800-46156800	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr3:46156000-46156800	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr3:46156000-46157200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:46156000-46157200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr3:46156000-46159000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:46156200-46156400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr3:46156200-46156400	Enhancers	HSMMtube	muscle
36	chr3:46156200-46156800	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr3:46156200-46156800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
38	chr3:46156200-46157000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr3:46156200-46157000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
40	chr3:46156200-46157200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr3:46156200-46157200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr3:46156200-46157800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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