Variant report

Variant	rs1546229
Chromosome Location	chr3:155929798-155929799
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1118418	0.93[ASN][1000 genomes]
rs1120745	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713991	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11915771	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11915832	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922447	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1353812	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1391889	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1391890	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1499051	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1499052	0.93[ASN][1000 genomes]
rs1499054	0.93[ASN][1000 genomes]
rs1499055	0.83[CEU][hapmap];0.83[AMR][1000 genomes]
rs1499056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17170	0.93[CEU][hapmap];1.00[JPT][hapmap]
rs1909372	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1909373	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1909374	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1909375	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1909376	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2017971	0.84[AMR][1000 genomes]
rs2173492	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs4271877	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4333049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4355235	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4450760	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4453801	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4472010	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs4488791	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs4505650	0.95[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4530487	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4533601	0.89[CEU][hapmap]
rs4577423	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4634068	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4679763	0.89[ASN][1000 genomes]
rs4679764	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4679765	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs4680239	0.96[CEU][hapmap]
rs4680244	0.85[CEU][hapmap];0.84[AMR][1000 genomes]
rs4680248	0.83[AMR][1000 genomes]
rs4680249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441039	0.85[CEU][hapmap]
rs6441042	0.82[CEU][hapmap]
rs6441045	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs6441046	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6441047	0.93[ASN][1000 genomes]
rs6441049	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6441050	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441051	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6764861	0.85[CEU][hapmap];0.84[AMR][1000 genomes]
rs6775600	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs6788238	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6806129	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs728382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7372394	0.93[ASN][1000 genomes]
rs7373565	0.84[AMR][1000 genomes]
rs7611194	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7612532	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7620808	0.83[AMR][1000 genomes]
rs7621586	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7633871	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634800	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638421	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7640712	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs963226	0.85[CEU][hapmap];0.81[AMR][1000 genomes]
rs963227	0.82[CEU][hapmap];0.81[AMR][1000 genomes]
rs9818040	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs9832745	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs9857202	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9864967	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9866991	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][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	nsv592085	chr3:155827634-156012679	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155922600-155929800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:155925600-155929800	Enhancers	Fetal Heart	heart
3	chr3:155926600-155933400	Weak transcription	HSMMtube	muscle
4	chr3:155926800-155935600	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr3:155927000-155935400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:155927200-155930400	Weak transcription	Aorta	Aorta
7	chr3:155927800-155930600	Enhancers	HUVEC	blood vessel
8	chr3:155928000-155934400	Weak transcription	Pancreas	Pancrea
9	chr3:155928400-155930200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:155928400-155930800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:155928800-155930000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:155928800-155930800	Enhancers	NHEK	skin
13	chr3:155929000-155930000	Enhancers	HMEC	breast
14	chr3:155929000-155930000	Enhancers	NH-A	brain
15	chr3:155929200-155930000	Enhancers	Osteobl	bone
16	chr3:155929200-155930600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:155929400-155930000	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr3:155929400-155930000	Enhancers	Primary hematopoietic stem cells	blood
19	chr3:155929600-155929800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr3:155929600-155929800	Enhancers	Gastric	stomach
21	chr3:155929600-155930600	Enhancers	Primary hematopoietic stem cells short term culture	blood

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