Variant report

Variant	rs3762775
Chromosome Location	chr3:23934772-23934773
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23930170..23932162-chr3:23932484..23935358,2	K562	blood:
2	chr3:23934601..23938770-chr3:23957665..23961115,6	MCF-7	breast:
3	chr3:23927429..23929219-chr3:23934294..23936839,2	K562	blood:
4	chr3:23930243..23932089-chr3:23933446..23935951,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000174748	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10084748	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1037635	1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[ASN][1000 genomes]
rs11129128	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13070128	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13087250	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13316457	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13317815	0.80[ASW][hapmap];0.89[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs13321439	0.83[EUR][1000 genomes]
rs13321440	0.83[EUR][1000 genomes]
rs1533141	0.82[EUR][1000 genomes]
rs1567579	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1567580	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28524116	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34036067	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34058540	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34082882	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34593533	0.83[EUR][1000 genomes]
rs34866549	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34953164	1.00[ASN][1000 genomes]
rs35136361	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35457462	0.91[EUR][1000 genomes]
rs35755171	1.00[ASN][1000 genomes]
rs35755253	1.00[ASN][1000 genomes]
rs36063721	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36089963	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3935253	1.00[ASW][hapmap];0.89[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4131404	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4300960	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4490300	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535169	1.00[ASN][1000 genomes]
rs4602333	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.86[TSI][hapmap];0.92[YRI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858096	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858554	1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4858556	1.00[ASN][1000 genomes]
rs4858564	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932805	1.00[ASN][1000 genomes]
rs6550808	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66609380	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67002637	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67236598	1.00[ASN][1000 genomes]
rs67606949	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767005	1.00[ASN][1000 genomes]
rs6770052	0.86[CEU][hapmap];0.82[YRI][hapmap];0.83[EUR][1000 genomes]
rs6775878	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6776201	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6776568	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6778577	0.93[ASW][hapmap];0.89[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.93[TSI][hapmap];0.82[YRI][hapmap];0.81[EUR][1000 genomes]
rs6790140	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791805	1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[ASN][1000 genomes]
rs6803214	1.00[ASN][1000 genomes]
rs6803587	0.83[EUR][1000 genomes]
rs71324126	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150266	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150299	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610689	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7610935	1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7611018	1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs954748	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9809225	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812419	1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[ASN][1000 genomes]
rs9812870	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9817923	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9853954	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855481	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.92[YRI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859567	0.90[CEU][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9863176	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875577	0.90[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882067	1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[ASN][1000 genomes]
rs9883834	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23901200-23942000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:23901800-23935600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:23907600-23940200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:23908000-23935600	Weak transcription	Fetal Kidney	kidney
5	chr3:23908000-23935600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:23908000-23940200	Weak transcription	Gastric	stomach
7	chr3:23916000-23950200	Weak transcription	Aorta	Aorta
8	chr3:23916200-23948800	Weak transcription	Colonic Mucosa	Colon
9	chr3:23919000-23940000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:23919200-23935800	Weak transcription	Psoas Muscle	Psoas
11	chr3:23919200-23938400	Weak transcription	Ovary	ovary
12	chr3:23919200-23940200	Weak transcription	Pancreas	Pancrea
13	chr3:23919600-23935400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:23920000-23939000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr3:23920200-23935800	Weak transcription	Brain Germinal Matrix	brain
16	chr3:23920200-23935800	Weak transcription	Right Atrium	heart
17	chr3:23920800-23940200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:23922400-23956600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:23922600-23936000	Weak transcription	Right Ventricle	heart
20	chr3:23922600-23940000	Weak transcription	Colon Smooth Muscle	Colon
21	chr3:23923000-23956600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr3:23923400-23955200	Weak transcription	Thymus	Thymus
23	chr3:23923400-23957000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr3:23923600-23956800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr3:23924000-23939000	Weak transcription	Fetal Brain Male	brain
26	chr3:23924200-23957800	Weak transcription	Esophagus	oesophagus
27	chr3:23924200-23957800	Weak transcription	Lung	lung
28	chr3:23924400-23935600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr3:23924400-23940200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr3:23924600-23935000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr3:23924600-23936000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr3:23924600-23940000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr3:23924600-23940200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr3:23925000-23936000	Weak transcription	Spleen	Spleen
35	chr3:23925000-23940200	Weak transcription	Fetal Brain Female	brain
36	chr3:23925800-23937200	Strong transcription	GM12878-XiMat	blood
37	chr3:23928000-23935600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr3:23928000-23957200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr3:23928200-23939800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr3:23928800-23935000	Strong transcription	Rectal Mucosa Donor 31	rectum
41	chr3:23928800-23956000	Weak transcription	Small Intestine	intestine
42	chr3:23928800-23957400	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr3:23929000-23937400	Strong transcription	Fetal Intestine Large	intestine
44	chr3:23929000-23956600	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:23929400-23937200	Strong transcription	Dnd41	blood
46	chr3:23929800-23944200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr3:23930000-23936000	Enhancers	Primary neutrophils fromperipheralblood	blood
48	chr3:23930200-23936000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr3:23930600-23935000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr3:23930600-23935600	Weak transcription	Brain Inferior Temporal Lobe	brain

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