Variant report

Variant	rs13065499
Chromosome Location	chr3:135771730-135771731
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs12630389	0.92[ASN][1000 genomes]
rs12632791	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12633805	0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12637541	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13059064	0.88[ASN][1000 genomes]
rs13069408	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072433	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072690	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs13072782	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs13075579	0.98[ASN][1000 genomes]
rs13078865	0.88[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs13084404	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs13092707	1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13097172	0.94[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs13097176	0.83[ASN][1000 genomes]
rs13097267	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13100235	0.84[ASN][1000 genomes]
rs1523593	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1523598	0.83[ASN][1000 genomes]
rs1523599	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1523600	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843560	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16843611	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2140450	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2177407	1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2400649	0.88[ASN][1000 genomes]
rs34447526	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34683314	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34706807	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35097316	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35209948	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35264626	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35532770	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35946332	0.88[ASN][1000 genomes]
rs35961065	0.92[ASN][1000 genomes]
rs3946444	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs4075999	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4331626	0.88[ASN][1000 genomes]
rs4678224	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4678288	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4678432	1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4678434	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4678435	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55873361	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56152207	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57594457	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60070757	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61791712	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61791714	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439603	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6439605	0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs6439609	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6439610	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs6439614	0.87[ASN][1000 genomes]
rs6439615	0.88[ASN][1000 genomes]
rs6439618	0.88[ASN][1000 genomes]
rs6439622	0.94[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs6439623	0.94[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs6439624	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6770366	0.85[ASN][1000 genomes]
rs6771950	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6775261	0.88[ASN][1000 genomes]
rs6779903	1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6793273	0.88[ASN][1000 genomes]
rs6803786	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807242	0.84[YRI][hapmap]
rs7433592	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610302	0.88[ASN][1000 genomes]
rs7625177	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs7625607	0.90[ASN][1000 genomes]
rs7635621	0.88[ASN][1000 genomes]
rs7650079	0.94[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9289501	0.85[ASN][1000 genomes]
rs9289503	0.84[YRI][hapmap]
rs940229	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9682712	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9758578	0.97[ASN][1000 genomes]
rs9846554	0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs9852009	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9852169	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9856799	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9866235	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs9868239	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 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	chr3:135738000-135775800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:135742800-135774200	Weak transcription	HMEC	breast
3	chr3:135746200-135790000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:135750400-135772800	Weak transcription	Brain Substantia Nigra	brain
5	chr3:135750800-135775800	Weak transcription	Liver	Liver
6	chr3:135755200-135801400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:135761000-135802400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:135761600-135783400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr3:135762200-135772800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr3:135762200-135773000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:135762200-135774000	Weak transcription	Brain Angular Gyrus	brain
12	chr3:135763000-135785600	Weak transcription	Brain Anterior Caudate	brain
13	chr3:135763200-135772600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:135763200-135775000	Strong transcription	Fetal Muscle Leg	muscle
15	chr3:135763200-135776800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:135763600-135775600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:135764400-135790400	Weak transcription	Brain Cingulate Gyrus	brain
18	chr3:135764600-135772200	Weak transcription	Colonic Mucosa	Colon
19	chr3:135764600-135773800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr3:135764600-135774400	Weak transcription	NHEK	skin
21	chr3:135764600-135778000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr3:135764800-135775800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr3:135764800-135790400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr3:135765000-135774200	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr3:135765000-135776400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr3:135765000-135777800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr3:135765000-135781000	Weak transcription	Fetal Brain Female	brain
28	chr3:135765000-135781200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:135765000-135781200	Weak transcription	Fetal Intestine Small	intestine
30	chr3:135765000-135786000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:135765000-135801800	Weak transcription	Esophagus	oesophagus
32	chr3:135765400-135777600	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr3:135765600-135772200	Weak transcription	NH-A	brain
34	chr3:135765600-135784200	Weak transcription	Fetal Kidney	kidney
35	chr3:135765600-135785400	Weak transcription	Pancreas	Pancrea
36	chr3:135767000-135772600	Strong transcription	Ovary	ovary
37	chr3:135767000-135772600	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr3:135767000-135775000	Strong transcription	Stomach Smooth Muscle	stomach
39	chr3:135767200-135774400	Weak transcription	Fetal Brain Male	brain
40	chr3:135767800-135773000	Strong transcription	NHDF-Ad	bronchial
41	chr3:135768000-135774000	Weak transcription	HUVEC	blood vessel
42	chr3:135768000-135776600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr3:135768400-135772600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr3:135768400-135773000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr3:135768800-135774000	Weak transcription	Fetal Heart	heart
46	chr3:135768800-135776600	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr3:135768800-135800800	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr3:135769000-135772600	Strong transcription	Fetal Stomach	stomach
49	chr3:135769200-135772800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr3:135769400-135772200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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