Variant report

Variant	rs66733194
Chromosome Location	chr3:28386854-28386855
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:28370043..28372109-chr3:28386223..28389083,2	MCF-7	breast:

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1037723	0.92[ASN][1000 genomes]
rs11705962	0.88[ASN][1000 genomes]
rs11706332	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11707705	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11710963	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11712484	0.89[ASN][1000 genomes]
rs11712489	0.89[ASN][1000 genomes]
rs11720107	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11918050	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11921692	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11924173	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11926399	0.95[ASN][1000 genomes]
rs13066118	0.86[ASN][1000 genomes]
rs13069839	0.80[ASN][1000 genomes]
rs13074633	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13075840	0.95[ASN][1000 genomes]
rs13080155	0.95[ASN][1000 genomes]
rs13081520	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13081787	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13087143	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13087774	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13088574	0.95[ASN][1000 genomes]
rs13090439	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13095628	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13095675	0.80[ASN][1000 genomes]
rs13099152	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1457909	0.89[ASN][1000 genomes]
rs1457910	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1606386	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1606388	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17021402	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17357206	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17638742	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17638782	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17638991	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17695765	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17695884	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17696025	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17696459	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17696561	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17696783	0.92[ASN][1000 genomes]
rs1975828	0.80[ASN][1000 genomes]
rs1975829	0.81[ASN][1000 genomes]
rs34311197	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34574968	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34796684	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35088087	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35137555	0.89[ASN][1000 genomes]
rs35177150	0.92[ASN][1000 genomes]
rs35702956	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35736614	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35825908	0.92[ASN][1000 genomes]
rs35845822	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36051688	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36105900	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3762797	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234337	0.87[ASN][1000 genomes]
rs4256085	0.87[ASN][1000 genomes]
rs4295137	0.87[ASN][1000 genomes]
rs4322963	0.87[ASN][1000 genomes]
rs4428136	0.86[ASN][1000 genomes]
rs4450765	0.87[ASN][1000 genomes]
rs4452283	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4522735	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4680750	0.80[ASN][1000 genomes]
rs4680753	0.87[ASN][1000 genomes]
rs58918848	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59975750	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60043893	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62250271	0.95[ASN][1000 genomes]
rs62250272	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62250273	0.93[ASN][1000 genomes]
rs62250296	0.92[ASN][1000 genomes]
rs62251105	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62251108	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62251131	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62251134	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62251138	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62251144	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62252069	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6551255	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66502736	0.80[ASN][1000 genomes]
rs66767946	0.88[ASN][1000 genomes]
rs6763313	0.80[ASN][1000 genomes]
rs6771057	0.80[ASN][1000 genomes]
rs6771460	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs68085718	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71087683	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7434193	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7627471	0.86[ASN][1000 genomes]
rs7627575	0.87[ASN][1000 genomes]
rs7635383	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7638450	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7639750	0.80[ASN][1000 genomes]
rs7643191	0.89[ASN][1000 genomes]
rs7649498	0.80[ASN][1000 genomes]
rs7650831	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs952888	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9683360	0.92[ASN][1000 genomes]
rs969443	0.92[ASN][1000 genomes]
rs9843464	0.80[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	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28317600-28389400	Weak transcription	Esophagus	oesophagus
2	chr3:28349800-28389400	Weak transcription	Gastric	stomach
3	chr3:28358800-28389000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:28360400-28387400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:28362800-28387800	Weak transcription	HUVEC	blood vessel
6	chr3:28363600-28389000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:28363800-28389600	Weak transcription	Spleen	Spleen
8	chr3:28364000-28388400	Weak transcription	Fetal Brain Female	brain
9	chr3:28365400-28389400	Weak transcription	Lung	lung
10	chr3:28366000-28388600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr3:28366200-28389400	Weak transcription	Colonic Mucosa	Colon
12	chr3:28366400-28389200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr3:28367000-28388800	Weak transcription	Brain Angular Gyrus	brain
14	chr3:28367000-28389000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:28367200-28387800	Weak transcription	Fetal Brain Male	brain
16	chr3:28367200-28388800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr3:28367200-28389400	Weak transcription	Pancreas	Pancrea
18	chr3:28367400-28388800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr3:28368400-28387600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:28368400-28388800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr3:28372400-28388400	Weak transcription	Primary hematopoietic stem cells	blood
22	chr3:28373400-28388400	Weak transcription	Stomach Mucosa	stomach
23	chr3:28374000-28387800	Weak transcription	Brain Germinal Matrix	brain
24	chr3:28377800-28387600	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr3:28377800-28387600	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr3:28377800-28388600	Weak transcription	Brain Substantia Nigra	brain
27	chr3:28377800-28389200	Weak transcription	Primary B cells from peripheral blood	blood
28	chr3:28378400-28389400	Weak transcription	Ovary	ovary
29	chr3:28378800-28387400	Weak transcription	Brain Hippocampus Middle	brain
30	chr3:28379000-28389600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr3:28379200-28387800	Weak transcription	Psoas Muscle	Psoas
32	chr3:28379200-28388200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr3:28379400-28388800	Weak transcription	Fetal Muscle Leg	muscle
34	chr3:28379600-28387800	Weak transcription	Primary B cells from cord blood	blood
35	chr3:28380200-28387600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr3:28380600-28388400	Weak transcription	Fetal Intestine Large	intestine
37	chr3:28380600-28388400	Weak transcription	HSMMtube	muscle
38	chr3:28380600-28389200	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr3:28380800-28387800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr3:28380800-28388800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr3:28380800-28388800	Weak transcription	Left Ventricle	heart
42	chr3:28380800-28389200	Weak transcription	Fetal Muscle Trunk	muscle
43	chr3:28381000-28387400	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr3:28381200-28388800	Weak transcription	Fetal Thymus	thymus
45	chr3:28381600-28389200	Weak transcription	Placenta	Placenta
46	chr3:28381800-28387400	Weak transcription	HSMM	muscle
47	chr3:28381800-28388200	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr3:28381800-28388400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr3:28381800-28388600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:28381800-28388800	Weak transcription	HUES64 Cell Line	embryonic stem cell

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