Variant report

Variant	rs3934536
Chromosome Location	chr2:64089373-64089374
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:64078188..64080568-chr2:64088415..64090856,2	MCF-7	breast:
2	chr2:63918879..63919960-chr2:64088096..64089552,8	MCF-7	breast:
3	chr2:64066782..64070718-chr2:64080924..64091365,11	MCF-7	breast:
4	chr2:64067087..64069553-chr2:64087095..64089852,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169764	Chromatin interaction

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10166971	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10175674	0.89[CHB][hapmap]
rs12463827	0.81[EUR][1000 genomes]
rs12466966	0.92[EUR][1000 genomes]
rs12468093	0.83[EUR][1000 genomes]
rs12474366	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12475294	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12988017	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]
rs12990604	0.93[EUR][1000 genomes]
rs12993544	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12997303	0.84[EUR][1000 genomes]
rs12999675	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13005218	0.83[EUR][1000 genomes]
rs13007342	0.84[EUR][1000 genomes]
rs13007731	0.84[EUR][1000 genomes]
rs13009774	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs13010817	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13014781	0.88[EUR][1000 genomes]
rs13023542	0.87[EUR][1000 genomes]
rs13025640	0.88[EUR][1000 genomes]
rs13028805	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13034260	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1345479	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1437455	0.85[EUR][1000 genomes]
rs1545196	0.84[EUR][1000 genomes]
rs17555655	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17562312	0.90[EUR][1000 genomes]
rs17620012	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17701685	0.85[EUR][1000 genomes]
rs17701709	0.85[EUR][1000 genomes]
rs17752683	0.85[EUR][1000 genomes]
rs2287361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2422110	0.80[EUR][1000 genomes]
rs34043307	0.87[EUR][1000 genomes]
rs34145077	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34196086	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34200806	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34239752	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34512058	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34900788	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35058898	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35122209	0.83[EUR][1000 genomes]
rs35247801	0.83[EUR][1000 genomes]
rs35253921	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35521527	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35552326	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35648996	0.87[EUR][1000 genomes]
rs35810427	0.90[EUR][1000 genomes]
rs35972278	0.91[EUR][1000 genomes]
rs35975566	0.93[EUR][1000 genomes]
rs36099158	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]
rs3815616	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4075010	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4482470	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4544421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4599090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4671072	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4671534	1.00[ASN][1000 genomes]
rs4671535	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4671537	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4671538	0.85[EUR][1000 genomes]
rs66476638	0.92[EUR][1000 genomes]
rs66535980	0.85[EUR][1000 genomes]
rs66595136	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66650505	0.92[EUR][1000 genomes]
rs66660401	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66993685	0.85[EUR][1000 genomes]
rs6730664	0.80[EUR][1000 genomes]
rs67366434	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67962955	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71422402	0.81[EUR][1000 genomes]
rs72808216	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72808218	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72808231	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72808248	0.93[EUR][1000 genomes]
rs72808254	0.92[EUR][1000 genomes]
rs72808262	0.93[EUR][1000 genomes]
rs72808287	0.84[EUR][1000 genomes]
rs874695	0.83[EUR][1000 genomes]
rs893779	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013375	chr2:63969820-64231550	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv3459595	chr2:64088179-64090097	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3459597	chr2:64088186-64090115	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv3513333	chr2:64088206-64090089	Weak transcription Genic enhancers Strong transcription Active TSS Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3513329	chr2:64088210-64090035	Weak transcription Flanking Active TSS Strong transcription Genic enhancers Enhancers Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3513331	chr2:64088230-64090039	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3513332	chr2:64088256-64090040	Strong transcription Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv3513334	chr2:64088260-64090035	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	esv3459598	chr2:64088315-64089993	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	esv3513335	chr2:64088315-64089993	Weak transcription Genic enhancers Strong transcription Active TSS Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv16609	chr2:64088361-64089955	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:64070200-64103000	Weak transcription	Gastric	stomach
2	chr2:64077000-64100200	Weak transcription	Ovary	ovary
3	chr2:64078000-64108000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr2:64081800-64089800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr2:64081800-64100600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr2:64082200-64089600	Weak transcription	Stomach Mucosa	stomach
7	chr2:64082200-64091400	Strong transcription	H1 Cell Line	embryonic stem cell
8	chr2:64082200-64092400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr2:64082200-64100200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr2:64082200-64110000	Weak transcription	Colon Smooth Muscle	Colon
11	chr2:64082600-64089400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr2:64083000-64089400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr2:64083000-64089600	Strong transcription	Muscle Satellite Cultured Cells	--
14	chr2:64083000-64123000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr2:64083000-64129200	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr2:64083200-64089600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr2:64083200-64089600	Strong transcription	NH-A	brain
18	chr2:64083200-64090200	Strong transcription	Fetal Muscle Leg	muscle
19	chr2:64083200-64091600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr2:64083200-64092000	Strong transcription	Fetal Lung	lung
21	chr2:64083200-64097800	Weak transcription	Right Atrium	heart
22	chr2:64083200-64110200	Weak transcription	Small Intestine	intestine
23	chr2:64083200-64110600	Weak transcription	Pancreas	Pancrea
24	chr2:64083400-64089600	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr2:64083400-64091600	Strong transcription	H9 Cell Line	embryonic stem cell
26	chr2:64083600-64089600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr2:64083600-64092000	Strong transcription	Placenta	Placenta
28	chr2:64083600-64095400	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr2:64083800-64089400	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr2:64084000-64092000	Strong transcription	Adipose Nuclei	Adipose
31	chr2:64084000-64095600	Genic enhancers	Dnd41	blood
32	chr2:64084200-64094000	Strong transcription	Primary neutrophils fromperipheralblood	blood
33	chr2:64084600-64100000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr2:64084800-64092800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr2:64085000-64089800	Weak transcription	Fetal Intestine Small	intestine
36	chr2:64085000-64090400	Strong transcription	Thymus	Thymus
37	chr2:64085000-64092600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr2:64085400-64089400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr2:64085400-64089400	Weak transcription	Stomach Smooth Muscle	stomach
40	chr2:64085400-64089600	Weak transcription	HUVEC	blood vessel
41	chr2:64085400-64092400	Strong transcription	Fetal Thymus	thymus
42	chr2:64085400-64093000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr2:64085400-64095000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr2:64085400-64095400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr2:64085400-64096600	Weak transcription	Brain Angular Gyrus	brain
46	chr2:64085400-64096600	Weak transcription	Brain Substantia Nigra	brain
47	chr2:64085400-64098000	Weak transcription	Lung	lung
48	chr2:64085400-64098000	Weak transcription	Psoas Muscle	Psoas
49	chr2:64085400-64098400	Weak transcription	Aorta	Aorta
50	chr2:64085400-64100000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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