Variant report

Variant	rs3747766
Chromosome Location	chr6:80257130-80257131
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	chr6:79786946..79788566-chr6:80255093..80257273,2	MCF-7	breast:
2	chr6:80232386..80237378-chr6:80253283..80257767,7	K562	blood:

Variant related genes	Relation type
ENSG00000146247	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10943650	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10943651	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13206818	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1351959	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1354452	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs2009837	0.81[AFR][1000 genomes]
rs2047896	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2655662	0.90[CHB][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2655700	0.85[CHB][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs2655701	0.82[ASN][1000 genomes]
rs2812689	0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2812692	0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs3747767	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3967183	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4055084	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4706789	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs66572100	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6915859	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6930436	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72624517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7754849	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9294148	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9341781	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9341782	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9343918	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9343920	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9343921	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9352736	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9352737	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9352738	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9352739	0.86[AMR][1000 genomes]
rs9352743	0.82[YRI][hapmap];0.96[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs9352744	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9352747	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9359379	0.86[AMR][1000 genomes]
rs9359382	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9359383	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9359384	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9361537	0.85[AMR][1000 genomes]
rs9361538	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9361539	0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs958114	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv886301	chr6:80111104-80339088	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv886302	chr6:80111104-80355973	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1027388	chr6:80113449-80355973	ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv830707	chr6:80134625-80325171	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv1029259	chr6:80142754-80340332	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv463906	chr6:80240951-80313297	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv604052	chr6:80240951-80313297	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv1018318	chr6:80241029-80465282	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80247600-80267800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:80247800-80257600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:80248000-80262000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:80248600-80262800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:80248600-80262800	Weak transcription	Liver	Liver
6	chr6:80248800-80258000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:80248800-80262000	Weak transcription	Psoas Muscle	Psoas
8	chr6:80248800-80272000	Weak transcription	Ovary	ovary
9	chr6:80249400-80262200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:80254200-80257200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:80254400-80262200	Weak transcription	Placenta	Placenta
12	chr6:80254400-80267800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:80254400-80271400	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr6:80254400-80273000	Weak transcription	Left Ventricle	heart
15	chr6:80254600-80260000	Weak transcription	Primary hematopoietic stem cells	blood
16	chr6:80254600-80273800	Weak transcription	Stomach Mucosa	stomach
17	chr6:80254800-80262000	Weak transcription	Right Ventricle	heart
18	chr6:80255000-80261600	Weak transcription	HepG2	liver
19	chr6:80255000-80280000	Weak transcription	Aorta	Aorta
20	chr6:80255200-80258000	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr6:80255200-80258800	Weak transcription	Brain Germinal Matrix	brain
22	chr6:80255200-80262600	Weak transcription	Fetal Brain Male	brain
23	chr6:80255200-80264800	Weak transcription	Fetal Heart	heart
24	chr6:80255200-80267800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:80255400-80260000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:80255400-80261600	Weak transcription	NHLF	lung
27	chr6:80255600-80257400	Enhancers	GM12878-XiMat	blood
28	chr6:80255600-80258200	Weak transcription	Fetal Lung	lung
29	chr6:80255600-80260200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:80255600-80260200	Weak transcription	Fetal Brain Female	brain
31	chr6:80255600-80262200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr6:80255600-80264800	Weak transcription	Fetal Intestine Large	intestine
33	chr6:80255600-80279400	Weak transcription	HMEC	breast
34	chr6:80255600-80280000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr6:80255800-80260200	Weak transcription	Brain Hippocampus Middle	brain
36	chr6:80255800-80275400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr6:80256000-80258200	Weak transcription	NHEK	skin
38	chr6:80256000-80260200	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr6:80256000-80260600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr6:80256000-80261400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr6:80256000-80262400	Weak transcription	HSMMtube	muscle
42	chr6:80256000-80263400	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr6:80256000-80263800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:80256000-80263800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr6:80256000-80280600	Weak transcription	Adipose Nuclei	Adipose
46	chr6:80256200-80257400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr6:80256200-80257800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr6:80256200-80260000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:80256200-80260400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr6:80256200-80261800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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