Variant report

Variant	rs9870921
Chromosome Location	chr3:105186692-105186693
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105186048..105188294-chr3:105188492..105191411,2	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1017913	0.85[JPT][hapmap];0.81[MEX][hapmap]
rs1017914	0.85[JPT][hapmap]
rs1036581	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12488994	0.94[CHD][hapmap]
rs13100098	0.94[CHD][hapmap]
rs13100997	0.82[EUR][1000 genomes]
rs1438538	0.94[CHD][hapmap]
rs1994317	0.85[JPT][hapmap]
rs2033802	0.92[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2053307	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2178407	0.87[CHD][hapmap]
rs2252459	0.85[JPT][hapmap];0.81[MEX][hapmap]
rs4894924	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];0.88[MEX][hapmap];0.80[TSI][hapmap];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6767277	0.94[CHD][hapmap]
rs6769302	0.94[CHD][hapmap]
rs6779807	0.94[CHD][hapmap]
rs6790159	0.81[EUR][1000 genomes]
rs7428824	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7431531	0.94[CHD][hapmap]
rs7641185	0.96[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7644273	0.87[CHD][hapmap]
rs9827147	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9827196	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9864062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv877304	chr3:105122214-105198374	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105179000-105191400	Weak transcription	HSMM	muscle
2	chr3:105179000-105192200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:105179600-105192400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:105184400-105187000	Enhancers	Brain Hippocampus Middle	brain
5	chr3:105185200-105189200	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr3:105185200-105191000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:105185200-105193000	Weak transcription	Aorta	Aorta
8	chr3:105185600-105189800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:105185800-105192400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:105186000-105189200	Weak transcription	Osteobl	bone
11	chr3:105186000-105189800	Weak transcription	Brain Substantia Nigra	brain
12	chr3:105186000-105190000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr3:105186200-105189000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:105186200-105192200	Weak transcription	Brain Angular Gyrus	brain
15	chr3:105186200-105194000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr3:105186400-105190600	Weak transcription	Brain Anterior Caudate	brain
17	chr3:105186400-105190800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:105186400-105191400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:105186400-105191400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr3:105186400-105192200	Weak transcription	A549	lung

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