Variant report

Variant	rs2201484
Chromosome Location	chr3:23262559-23262560
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs11707094	0.81[ASN][1000 genomes]
rs11707450	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11708040	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11712500	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11712582	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11713392	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11715035	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11715107	0.91[YRI][hapmap]
rs1495133	0.85[YRI][hapmap]
rs1495134	0.91[YRI][hapmap]
rs1692619	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs1695180	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs17342980	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17401836	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17402378	0.94[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1874234	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs1874502	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs1874503	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs1994953	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2036044	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs2036045	1.00[CHB][hapmap];0.85[YRI][hapmap]
rs2055155	0.80[CEU][hapmap];1.00[YRI][hapmap]
rs2055156	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2055157	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2101811	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2132144	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2132145	1.00[YRI][hapmap]
rs2132146	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2132148	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.95[ASN][1000 genomes]
rs2132149	0.90[CHB][hapmap];0.87[YRI][hapmap]
rs2173057	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs2359754	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2359755	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[YRI][hapmap]
rs2359761	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs35194124	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35613382	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4334589	0.87[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4858063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4858070	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs4858487	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4858489	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4858490	0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4858495	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4858499	0.88[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4858507	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs5023615	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59185768	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62252657	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62255292	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62255293	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6550754	0.81[YRI][hapmap]
rs6550760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs6762546	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6774214	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6780388	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs6790327	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6801824	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs7621680	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7629327	0.92[YRI][hapmap]
rs7643705	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7648425	0.80[CEU][hapmap];1.00[YRI][hapmap]
rs7653868	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs778463	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs903520	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs923996	0.90[ASN][1000 genomes]
rs931609	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs9757330	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs9758590	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs9815299	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9823684	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9836135	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.86[ASN][1000 genomes]
rs9840808	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9841336	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9848331	1.00[YRI][hapmap]
rs9848389	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9849679	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9863465	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9875910	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[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	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23245800-23262800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:23246200-23264200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:23246400-23273400	Weak transcription	Aorta	Aorta
4	chr3:23248800-23265800	Weak transcription	Primary T cells from cord blood	blood
5	chr3:23249000-23273400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:23251600-23262800	Weak transcription	Adipose Nuclei	Adipose
7	chr3:23257000-23263200	Enhancers	Brain Hippocampus Middle	brain
8	chr3:23259000-23262600	Enhancers	Colon Smooth Muscle	Colon
9	chr3:23260800-23262600	Enhancers	Primary B cells from peripheral blood	blood
10	chr3:23260800-23262600	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr3:23260800-23270400	Weak transcription	Psoas Muscle	Psoas
12	chr3:23260800-23273400	Weak transcription	Right Atrium	heart
13	chr3:23261000-23262600	Enhancers	Primary B cells from cord blood	blood
14	chr3:23261000-23273400	Weak transcription	Ovary	ovary
15	chr3:23261000-23274400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr3:23261200-23262600	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr3:23261200-23264800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr3:23261200-23272600	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr3:23261400-23278200	Weak transcription	Brain Angular Gyrus	brain
20	chr3:23261600-23264400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr3:23262000-23263400	Flanking Active TSS	GM12878-XiMat	blood
22	chr3:23262200-23263200	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:23262400-23262600	Enhancers	Primary hematopoietic stem cells	blood
24	chr3:23262400-23262600	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr3:23262400-23262600	Enhancers	Thymus	Thymus
26	chr3:23262400-23262600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
27	chr3:23262400-23263200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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