Variant report

Variant	rs4602333
Chromosome Location	chr3:24019327-24019328
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24009665..24011305-chr3:24016981..24019425,2	K562	blood:
2	chr3:23958447..23960290-chr3:24018623..24020372,3	K562	blood:
3	chr3:23986927..23990599-chr3:24017347..24022054,5	MCF-7	breast:
4	chr3:23958524..23960769-chr3:24016934..24019900,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000174738	Chromatin interaction
ENSG00000174748	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10084748	0.90[AMR][1000 genomes];0.87[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];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11129130	0.82[YRI][hapmap]
rs13070128	1.00[ASN][1000 genomes]
rs13087250	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13316457	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13317815	0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13321439	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13321440	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1533141	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1567579	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1567580	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28524116	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34036067	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34058540	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34082882	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34593533	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34866549	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34953164	1.00[ASN][1000 genomes]
rs35136361	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35457462	0.85[EUR][1000 genomes]
rs35755171	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35755253	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36063721	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36089963	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3762775	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]
rs3935253	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4131404	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4300960	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4490300	1.00[ASW][hapmap];0.89[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535169	1.00[ASN][1000 genomes]
rs4858096	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858554	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4858556	1.00[ASN][1000 genomes]
rs4858564	1.00[ASW][hapmap];0.89[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932805	1.00[ASN][1000 genomes]
rs6550808	0.85[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.82[YRI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66609380	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67002637	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67236598	1.00[ASN][1000 genomes]
rs67606949	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767005	1.00[ASN][1000 genomes]
rs6770052	0.86[CEU][hapmap];0.89[YRI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6775878	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];1.00[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.93[TSI][hapmap];0.89[YRI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6790140	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[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	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71324126	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150266	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150299	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610689	1.00[ASN][1000 genomes]
rs7610935	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7611018	1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs954748	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9809225	1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812419	1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[ASN][1000 genomes]
rs9812870	0.83[EUR][1000 genomes]
rs9817923	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9853954	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855481	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859567	0.90[CEU][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];1.00[ASN][1000 genomes]
rs9863176	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875577	0.90[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];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];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.92[YRI][hapmap];0.83[EUR][1000 genomes];1.00[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	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
2	nsv834638	chr3:23963860-24117191	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23989200-24020600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:23989200-24033200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:23994000-24022800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr3:23996200-24021200	Weak transcription	Small Intestine	intestine
5	chr3:23999800-24019600	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr3:24000000-24020400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr3:24000800-24019600	Strong transcription	Primary T cells fromperipheralblood	blood
8	chr3:24000800-24021800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr3:24002600-24020200	Strong transcription	Primary B cells from peripheral blood	blood
10	chr3:24004000-24022600	Weak transcription	Aorta	Aorta
11	chr3:24004000-24022600	Weak transcription	Pancreas	Pancrea
12	chr3:24004000-24023400	Weak transcription	Gastric	stomach
13	chr3:24004000-24023800	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr3:24004200-24022600	Weak transcription	Right Ventricle	heart
15	chr3:24005200-24022600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:24005600-24032800	Weak transcription	NH-A	brain
17	chr3:24005800-24021400	Strong transcription	Placenta	Placenta
18	chr3:24006200-24019400	Strong transcription	Primary T cells from cord blood	blood
19	chr3:24007800-24023200	Weak transcription	Colonic Mucosa	Colon
20	chr3:24009800-24022600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr3:24010200-24022400	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr3:24010200-24023800	Weak transcription	Psoas Muscle	Psoas
23	chr3:24010200-24028800	Weak transcription	HUVEC	blood vessel
24	chr3:24010400-24024000	Weak transcription	Brain Angular Gyrus	brain
25	chr3:24010600-24020600	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr3:24011600-24022400	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:24011800-24020800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:24013200-24022600	Weak transcription	Fetal Stomach	stomach
29	chr3:24013800-24022400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr3:24014200-24020200	Strong transcription	HUES48 Cell Line	embryonic stem cell
31	chr3:24014400-24019600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:24014600-24022600	Weak transcription	Fetal Thymus	thymus
33	chr3:24014800-24019400	Strong transcription	Ovary	ovary
34	chr3:24016000-24020200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr3:24016800-24020600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr3:24017000-24020800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr3:24017200-24019800	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr3:24017400-24019400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr3:24017400-24019400	Strong transcription	Brain Substantia Nigra	brain
40	chr3:24017400-24019400	Strong transcription	A549	lung
41	chr3:24017400-24019600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr3:24017400-24019600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr3:24017400-24019600	Strong transcription	Stomach Smooth Muscle	stomach
44	chr3:24017400-24019600	Strong transcription	NHLF	lung
45	chr3:24017600-24019400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:24017600-24019400	Strong transcription	Brain Cingulate Gyrus	brain
47	chr3:24017600-24019400	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr3:24017600-24019400	Strong transcription	Fetal Kidney	kidney
49	chr3:24017600-24019400	Strong transcription	Fetal Lung	lung
50	chr3:24017600-24019400	Strong transcription	Stomach Mucosa	stomach

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