Variant report

Variant	rs1201
Chromosome Location	chr4:86936468-86936469
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10002407	0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10023731	0.84[ASN][1000 genomes]
rs10027225	0.88[ASN][1000 genomes]
rs10031752	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs11929863	0.95[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs12502934	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12512583	0.84[ASN][1000 genomes]
rs13103374	0.91[ASN][1000 genomes]
rs13112959	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs13353771	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1469869	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1898248	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[ASN][1000 genomes]
rs1898249	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1946733	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2118044	0.88[ASN][1000 genomes]
rs2282596	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2282597	0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2282598	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2589506	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2589515	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2589516	0.95[ASN][1000 genomes]
rs28485608	0.88[ASN][1000 genomes]
rs28516651	0.92[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28865277	0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs34998174	0.88[ASN][1000 genomes]
rs35823399	0.84[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs3755970	0.83[AFR][1000 genomes]
rs3775167	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3775170	0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3775184	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6840318	0.88[ASN][1000 genomes]
rs9307015	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs958	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9884282	1.00[CHB][hapmap];0.88[YRI][hapmap];0.88[ASN][1000 genomes]
rs9884770	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9995879	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009622	chr4:86893536-87119153	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86916800-86985400	Weak transcription	Ovary	ovary
2	chr4:86917000-86954000	Weak transcription	Pancreas	Pancrea
3	chr4:86917400-86940400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr4:86919400-86941200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr4:86925400-86937200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:86925600-86937400	Weak transcription	Fetal Kidney	kidney
7	chr4:86928400-86937800	Weak transcription	Fetal Stomach	stomach
8	chr4:86928600-86953400	Weak transcription	Fetal Muscle Leg	muscle
9	chr4:86931600-86937600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr4:86931800-86937600	Enhancers	Osteobl	bone
11	chr4:86932400-86937600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr4:86932600-86937800	Weak transcription	Brain Angular Gyrus	brain
13	chr4:86932800-86953800	Weak transcription	Fetal Lung	lung
14	chr4:86933000-86937600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr4:86933400-86940200	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr4:86934200-86942200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr4:86934200-86953400	Weak transcription	Aorta	Aorta
18	chr4:86934400-86937400	Weak transcription	Brain Cingulate Gyrus	brain
19	chr4:86934400-86937800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr4:86935000-86936800	Enhancers	NHDF-Ad	bronchial
21	chr4:86935000-86937400	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr4:86935000-86937600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr4:86935000-86937600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr4:86935200-86936600	Enhancers	Right Atrium	heart
25	chr4:86935200-86937400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr4:86935200-86942200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:86935200-86949200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr4:86935400-86936800	Enhancers	Dnd41	blood
29	chr4:86935400-86937400	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr4:86935400-86937600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr4:86935400-86938400	Weak transcription	Brain Substantia Nigra	brain
32	chr4:86935600-86936600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr4:86935600-86936600	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr4:86935600-86936800	Enhancers	H1 Cell Line	embryonic stem cell
35	chr4:86935600-86936800	Enhancers	iPS-18 Cell Line	embryonic stem cell
36	chr4:86935600-86936800	Enhancers	Primary B cells from peripheral blood	blood
37	chr4:86935600-86936800	Enhancers	GM12878-XiMat	blood
38	chr4:86935600-86937000	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr4:86935600-86938400	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr4:86935800-86936600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr4:86935800-86936600	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr4:86935800-86936600	Enhancers	Spleen	Spleen
43	chr4:86935800-86937400	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr4:86935800-86937600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr4:86936000-86937200	Weak transcription	HSMM	muscle
46	chr4:86936000-86937800	Weak transcription	Brain Hippocampus Middle	brain
47	chr4:86936000-86937800	Weak transcription	Fetal Brain Female	brain
48	chr4:86936000-86948000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr4:86936000-86975600	Weak transcription	Brain Germinal Matrix	brain
50	chr4:86936200-86937800	Weak transcription	Brain Anterior Caudate	brain

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