Variant report

Variant	rs1659212
Chromosome Location	chr15:42625952-42625953
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs1062038	0.81[CEU][hapmap];0.92[CHB][hapmap]
rs10775126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10851407	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10851408	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10851409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11070370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11631917	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11631983	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11638784	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12101559	0.81[CHB][hapmap]
rs12438369	0.90[CEU][hapmap];0.91[EUR][1000 genomes]
rs12438453	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs12438562	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12441642	1.00[CEU][hapmap]
rs12441700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12594162	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12917101	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1359003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1359004	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1619030	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs1624183	0.83[CHB][hapmap]
rs1659213	0.91[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs1659217	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1659218	0.91[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs1659219	0.90[CHB][hapmap];0.88[JPT][hapmap];0.81[YRI][hapmap];0.97[ASN][1000 genomes]
rs1659221	0.97[ASN][1000 genomes]
rs1659222	0.90[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs1678984	0.97[ASN][1000 genomes]
rs1678985	1.00[CEU][hapmap];0.92[CHB][hapmap]
rs1678986	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs1678992	0.91[CHB][hapmap];0.95[ASN][1000 genomes]
rs1678993	0.91[CHB][hapmap];0.95[ASN][1000 genomes]
rs1679009	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs1679010	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs1679012	0.91[CHB][hapmap]
rs1703750	1.00[CEU][hapmap];0.92[CHB][hapmap]
rs1703754	0.83[CHB][hapmap]
rs1703755	0.91[CEU][hapmap];0.92[CHB][hapmap]
rs1712418	1.00[CEU][hapmap];0.92[CHB][hapmap]
rs2138831	1.00[CEU][hapmap]
rs2289295	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2407707	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2412682	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2412685	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2412705	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28364388	0.92[EUR][1000 genomes]
rs28364390	0.91[EUR][1000 genomes]
rs28364416	0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2918459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2918460	0.91[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.97[ASN][1000 genomes]
rs2918461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3850774	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4329897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4923940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4923943	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924645	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924648	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924653	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4924658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924660	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924674	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56702977	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57002846	0.84[EUR][1000 genomes]
rs57347762	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58313689	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs59132828	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs622442	1.00[CEU][hapmap];0.91[CHB][hapmap]
rs633934	1.00[CEU][hapmap];0.92[CHB][hapmap]
rs6493027	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6493045	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs660126	1.00[CEU][hapmap];0.92[CHB][hapmap];0.81[EUR][1000 genomes]
rs677878	1.00[CEU][hapmap];0.90[CHB][hapmap]
rs678778	0.82[CHB][hapmap]
rs681029	0.83[CHB][hapmap]
rs7086	1.00[CEU][hapmap];0.92[CHB][hapmap]
rs7163986	0.81[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7166785	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7168709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7175863	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7177120	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7179709	0.91[CHB][hapmap];0.88[JPT][hapmap]
rs7181742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7183015	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7183546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73400993	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs751572	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs765830	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8024113	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs8024732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8025601	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8026198	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8027283	0.83[CHB][hapmap]
rs8031315	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8033080	1.00[CEU][hapmap]
rs8036046	0.81[EUR][1000 genomes]
rs8036187	1.00[CEU][hapmap];0.92[CHB][hapmap];0.81[EUR][1000 genomes]
rs8036380	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8036596	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8037020	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9672382	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9920921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv904133	chr15:42528982-42681057	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv832986	chr15:42587825-42753664	Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42568400-42656000	Weak transcription	Small Intestine	intestine
2	chr15:42568600-42630800	Weak transcription	Dnd41	blood
3	chr15:42573400-42635800	Weak transcription	Gastric	stomach
4	chr15:42600400-42626400	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr15:42600600-42627200	Weak transcription	Fetal Brain Female	brain
6	chr15:42601200-42636000	Weak transcription	Brain Germinal Matrix	brain
7	chr15:42603200-42627200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr15:42603200-42636000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:42603400-42648600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr15:42603400-42648600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr15:42604000-42639400	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr15:42604600-42651200	Weak transcription	Fetal Kidney	kidney
13	chr15:42606200-42634600	Weak transcription	Pancreas	Pancrea
14	chr15:42613400-42626400	Strong transcription	Primary B cells from peripheral blood	blood
15	chr15:42614800-42627200	Weak transcription	Psoas Muscle	Psoas
16	chr15:42615000-42627200	Weak transcription	Fetal Intestine Small	intestine
17	chr15:42615600-42629000	Weak transcription	Right Ventricle	heart
18	chr15:42615600-42631800	Weak transcription	Lung	lung
19	chr15:42616200-42634600	Weak transcription	Fetal Stomach	stomach
20	chr15:42616200-42636600	Weak transcription	NHEK	skin
21	chr15:42616800-42636000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr15:42617000-42645000	Weak transcription	NHLF	lung
23	chr15:42618000-42636000	Weak transcription	Colonic Mucosa	Colon
24	chr15:42618600-42634800	Weak transcription	Placenta	Placenta
25	chr15:42619400-42626600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr15:42619600-42626400	Weak transcription	Fetal Thymus	thymus
27	chr15:42619600-42626600	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr15:42619600-42627200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr15:42619600-42634400	Weak transcription	Aorta	Aorta
30	chr15:42619600-42634400	Weak transcription	Ovary	ovary
31	chr15:42619600-42634800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr15:42619600-42635000	Weak transcription	Brain Hippocampus Middle	brain
33	chr15:42619600-42635600	Weak transcription	Thymus	Thymus
34	chr15:42619600-42635600	Weak transcription	Spleen	Spleen
35	chr15:42619600-42640000	Weak transcription	NHDF-Ad	bronchial
36	chr15:42619600-42647200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr15:42619600-42656200	Weak transcription	HMEC	breast
38	chr15:42619800-42626000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr15:42619800-42627000	Weak transcription	HSMM	muscle
40	chr15:42620200-42627400	Weak transcription	Osteobl	bone
41	chr15:42620200-42635000	Weak transcription	Brain Substantia Nigra	brain
42	chr15:42620600-42627200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr15:42620600-42634600	Weak transcription	Fetal Intestine Large	intestine
44	chr15:42620600-42634800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr15:42620800-42626400	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr15:42621600-42626000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr15:42621600-42627000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr15:42621600-42627400	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr15:42621800-42626600	Weak transcription	Left Ventricle	heart
50	chr15:42621800-42627200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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