Variant report

Variant	rs2169303
Chromosome Location	chr3:159497591-159497592
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs13070254	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1461103	0.96[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463514	0.96[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1675497	0.85[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs1965998	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126143	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2886623	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33050	1.00[JPT][hapmap]
rs33054	1.00[JPT][hapmap]
rs33056	1.00[JPT][hapmap]
rs3851360	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3863075	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3889311	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3911714	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4513503	1.00[CEU][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680520	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680527	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6441274	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441275	1.00[CEU][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6788052	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6802934	0.82[AMR][1000 genomes]
rs6805556	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7625089	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636819	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820045	0.85[AMR][1000 genomes];0.85[EUR][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	nsv4084	chr3:159492488-159513251	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159484200-159501200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:159484400-159505400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:159484600-159500400	Weak transcription	Fetal Intestine Small	intestine
4	chr3:159490200-159501400	Weak transcription	Aorta	Aorta
5	chr3:159493400-159500600	Weak transcription	Gastric	stomach
6	chr3:159493600-159497800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:159493600-159497800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:159493600-159504400	Weak transcription	Right Atrium	heart
9	chr3:159493600-159505200	Weak transcription	Lung	lung
10	chr3:159493600-159505400	Weak transcription	Fetal Stomach	stomach
11	chr3:159493600-159509200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr3:159493600-159516200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr3:159493800-159497800	Weak transcription	HMEC	breast
14	chr3:159493800-159502800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:159494000-159497800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:159494000-159499400	Weak transcription	Fetal Kidney	kidney
17	chr3:159494600-159500000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:159494800-159497800	Weak transcription	Esophagus	oesophagus
19	chr3:159494800-159498600	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr3:159494800-159503000	Weak transcription	NHDF-Ad	bronchial
21	chr3:159495000-159497600	Weak transcription	Osteobl	bone
22	chr3:159495000-159497800	Weak transcription	Left Ventricle	heart
23	chr3:159495000-159502000	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr3:159495000-159503000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:159495000-159503200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:159495200-159497600	Weak transcription	Brain Anterior Caudate	brain
27	chr3:159495200-159497600	Weak transcription	Stomach Smooth Muscle	stomach
28	chr3:159495200-159497800	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr3:159495200-159497800	Weak transcription	Right Ventricle	heart
30	chr3:159495200-159497800	Weak transcription	HSMM	muscle
31	chr3:159495200-159499400	Weak transcription	Brain Angular Gyrus	brain
32	chr3:159495200-159501400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:159495200-159502000	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr3:159495200-159502600	Weak transcription	HUVEC	blood vessel
35	chr3:159495200-159503000	Weak transcription	NHLF	lung
36	chr3:159495200-159503200	Weak transcription	Adipose Nuclei	Adipose
37	chr3:159495200-159504400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr3:159495200-159504600	Weak transcription	HSMMtube	muscle
39	chr3:159496400-159497800	Enhancers	Colon Smooth Muscle	Colon
40	chr3:159496400-159498000	Enhancers	Brain Hippocampus Middle	brain
41	chr3:159496400-159499800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr3:159496400-159501000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr3:159496800-159497800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr3:159496800-159498000	Weak transcription	Brain Substantia Nigra	brain
45	chr3:159497000-159498600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr3:159497200-159497600	Weak transcription	NH-A	brain
47	chr3:159497200-159499400	Weak transcription	Liver	Liver
48	chr3:159497200-159499800	Weak transcription	Brain Cingulate Gyrus	brain
49	chr3:159497400-159497600	Enhancers	NHEK	skin
50	chr3:159497400-159497800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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