Variant report

Variant	rs475163
Chromosome Location	chr1:193240251-193240252
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 159 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:155)

rs_ID	r²[population]
rs10399607	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10399929	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10494674	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap]
rs10732293	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10733078	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10737620	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10737621	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10737622	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10737623	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10754044	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs10754047	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10754048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10754049	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10754052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10754053	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10754054	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10754055	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10801173	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10801177	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10801178	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10801179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs10801182	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10801183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10801184	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10801187	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10801188	0.88[ASN][1000 genomes]
rs10801189	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10801190	0.96[ASN][1000 genomes]
rs10801191	1.00[ASN][1000 genomes]
rs10801192	0.97[ASN][1000 genomes]
rs10801194	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10921308	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10921312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs10921318	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10921323	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10921325	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10921326	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs10921328	0.97[ASN][1000 genomes]
rs10921330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.99[ASN][1000 genomes]
rs10921334	1.00[ASN][1000 genomes]
rs10921336	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11577299	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12034095	0.81[EUR][1000 genomes]
rs12037055	0.81[EUR][1000 genomes]
rs12040365	0.81[EUR][1000 genomes]
rs12041893	0.81[EUR][1000 genomes]
rs12047390	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs12064521	0.97[ASN][1000 genomes]
rs12078145	1.00[ASN][1000 genomes]
rs12090626	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12126529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12145057	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1221502	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12410213	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1325197	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1361404	0.81[CHB][hapmap]
rs1361405	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs1408830	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1536097	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1536098	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1536099	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1539724	0.90[JPT][hapmap]
rs1578242	1.00[ASN][1000 genomes]
rs1578243	1.00[ASN][1000 genomes]
rs1616234	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1632444	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16835282	0.84[EUR][1000 genomes]
rs16835304	0.81[EUR][1000 genomes]
rs1749424	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1749430	0.84[EUR][1000 genomes]
rs1749431	0.84[EUR][1000 genomes]
rs1749432	0.84[EUR][1000 genomes]
rs1769999	0.84[EUR][1000 genomes]
rs1972344	0.84[EUR][1000 genomes]
rs1972345	0.89[EUR][1000 genomes]
rs2078083	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2181408	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs2182106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2186016	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2251699	1.00[ASN][1000 genomes]
rs2254646	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2275444	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2370029	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2370079	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2477549	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2486842	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3738244	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.99[ASN][1000 genomes]
rs3806351	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4379660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4450000	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4466634	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4657744	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4657747	0.97[ASN][1000 genomes]
rs4657843	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4657847	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4657848	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4657854	0.81[EUR][1000 genomes]
rs4657855	0.81[EUR][1000 genomes]
rs474328	1.00[ASN][1000 genomes]
rs497362	0.83[EUR][1000 genomes]
rs503265	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs515964	0.83[EUR][1000 genomes]
rs523402	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs524701	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs543788	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs560900	0.89[EUR][1000 genomes]
rs569656	0.95[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs571029	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs578639	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59264807	0.84[EUR][1000 genomes]
rs6428152	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6428153	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6428154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6428155	0.86[ASN][1000 genomes]
rs6428156	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6428157	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6428159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6428160	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6428163	0.81[EUR][1000 genomes]
rs6428166	0.81[EUR][1000 genomes]
rs6663162	0.88[ASN][1000 genomes]
rs6665069	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap]
rs6665666	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6671237	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap]
rs6671476	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6673271	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6675827	1.00[ASN][1000 genomes]
rs6675833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6676878	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6680224	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6689006	0.96[ASN][1000 genomes]
rs6693734	0.90[CEU][hapmap];0.81[EUR][1000 genomes]
rs6697079	0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs693519	0.86[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7514072	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7515024	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.99[ASN][1000 genomes]
rs7518792	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7519242	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7528595	0.84[EUR][1000 genomes]
rs7542466	0.81[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap]
rs7545223	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7546869	0.86[ASN][1000 genomes]
rs7547615	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7550521	0.81[EUR][1000 genomes]
rs7554925	0.86[ASN][1000 genomes]
rs817136	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817138	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs817140	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.95[YRI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs817142	0.84[EUR][1000 genomes]
rs817143	0.84[EUR][1000 genomes]
rs843844	0.86[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.95[YRI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs912070	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs912071	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs942680	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9783104	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]

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	nsv832148	chr1:193143945-193292897	Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS 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	nsv872831	chr1:193152317-193322087	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1001174	chr1:193186758-193363372	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv1002564	chr1:193208937-193240380	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:193155800-193243400	Weak transcription	Pancreas	Pancrea
2	chr1:193187000-193245200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr1:193217000-193244600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr1:193218600-193258200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:193222400-193253800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:193228400-193243600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr1:193228400-193244600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr1:193229000-193254800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:193229600-193240800	Weak transcription	Gastric	stomach
10	chr1:193231600-193251200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr1:193232000-193249400	Weak transcription	Fetal Heart	heart
12	chr1:193232600-193244600	Weak transcription	Primary T cells from cord blood	blood
13	chr1:193235400-193242200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr1:193235400-193243000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr1:193235400-193252000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr1:193235400-193252200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr1:193239400-193240600	Enhancers	HSMMtube	muscle
18	chr1:193239400-193240600	Enhancers	NH-A	brain
19	chr1:193239800-193254600	Weak transcription	HSMM	muscle
20	chr1:193240000-193240400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr1:193240200-193240400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr1:193240200-193240400	Enhancers	GM12878-XiMat	blood

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