Variant report

Variant	rs12152416
Chromosome Location	chr3:59750069-59750070
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13313901	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1349021	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1550925	0.87[CEU][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.80[MEX][hapmap];0.96[TSI][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1666064	0.81[EUR][1000 genomes]
rs1683347	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1683349	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17061173	0.82[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17295070	0.82[CHD][hapmap]
rs4679606	0.88[CHD][hapmap];0.82[ASN][1000 genomes]
rs4679607	0.92[CHB][hapmap];0.85[YRI][hapmap];0.81[ASN][1000 genomes]
rs477697	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs481165	0.87[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73092687	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs73092688	0.94[EUR][1000 genomes]
rs73092690	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs73092698	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs73092702	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs73094508	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73094588	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73094593	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9826481	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9847591	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9865682	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs993000	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.92[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	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59738800-59754400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
2	chr3:59741600-59757800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:59743400-59750200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:59745200-59757000	Weak transcription	Dnd41	blood
5	chr3:59745400-59751200	Weak transcription	Osteobl	bone
6	chr3:59745600-59751200	Weak transcription	Fetal Lung	lung
7	chr3:59745600-59752200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:59746200-59750600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:59746800-59757400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:59747000-59751000	Weak transcription	Primary T cells from cord blood	blood
11	chr3:59747000-59757200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr3:59747200-59757000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:59747800-59750600	Enhancers	Fetal Stomach	stomach
14	chr3:59748400-59752600	Enhancers	Fetal Muscle Leg	muscle
15	chr3:59748600-59752200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr3:59748800-59751200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:59748800-59752800	Enhancers	NHDF-Ad	bronchial
18	chr3:59749400-59752800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:59749600-59750400	Enhancers	Fetal Brain Female	brain
20	chr3:59749600-59750400	Enhancers	Fetal Thymus	thymus
21	chr3:59750000-59750200	Enhancers	Primary T helper cells fromperipheralblood	blood
22	chr3:59750000-59750600	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr3:59750000-59751200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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