Variant report

Variant	rs16861032
Chromosome Location	chr3:113187675-113187676
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:113184639..113186627-chr3:113186960..113188718,2	MCF-7	breast:

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10511325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917288	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919330	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920635	0.87[YRI][hapmap]
rs11920725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922598	0.91[JPT][hapmap]
rs11922838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11923128	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11924109	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11926687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1513288	0.91[JPT][hapmap];0.94[EUR][1000 genomes]
rs16845106	1.00[JPT][hapmap]
rs16845109	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16845110	0.85[YRI][hapmap]
rs16860962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16860995	0.88[YRI][hapmap]
rs16861014	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861023	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861059	0.88[YRI][hapmap]
rs16861077	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861109	1.00[CEU][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes]
rs16861130	0.84[JPT][hapmap]
rs16861165	0.84[JPT][hapmap]
rs16861217	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs17255950	0.91[EUR][1000 genomes]
rs17256551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17256752	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17322613	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17325024	0.80[JPT][hapmap];0.87[EUR][1000 genomes]
rs1906141	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1989359	1.00[CEU][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes]
rs2129431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2129432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254267	0.84[JPT][hapmap]
rs2271496	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs2291412	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306068	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2306070	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2399486	0.84[JPT][hapmap]
rs28472841	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35758075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35812463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732799	0.84[JPT][hapmap]
rs3814399	1.00[JPT][hapmap]
rs4331647	0.84[JPT][hapmap]
rs4508746	0.84[JPT][hapmap]
rs4580515	0.84[JPT][hapmap]
rs56685963	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56772417	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57115529	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57164268	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57366942	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58905600	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58988763	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59271111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59493419	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59673391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59742486	0.84[EUR][1000 genomes]
rs60582065	0.84[EUR][1000 genomes]
rs60697865	0.91[EUR][1000 genomes]
rs60940543	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61065093	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61575357	0.87[EUR][1000 genomes]
rs61594119	0.84[EUR][1000 genomes]
rs6438150	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438151	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776729	0.84[JPT][hapmap]
rs6776974	0.84[JPT][hapmap]
rs6780755	0.84[JPT][hapmap]
rs6782784	0.84[JPT][hapmap]
rs6783691	1.00[CEU][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6790846	0.84[JPT][hapmap]
rs6805231	0.84[JPT][hapmap]
rs735	0.91[EUR][1000 genomes]
rs7610552	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7620700	0.84[JPT][hapmap]
rs7646262	0.84[JPT][hapmap]
rs9832953	0.82[JPT][hapmap]
rs9848190	0.84[JPT][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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1004000	chr3:113116778-113513899	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	esv3406798	chr3:113187412-113189360	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	Chromatin interactive region	n/a	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	chr3:113146000-113191000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr3:113160200-113190000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:113160400-113188800	Weak transcription	Colonic Mucosa	Colon
4	chr3:113160400-113191200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:113160400-113192800	Weak transcription	Stomach Mucosa	stomach
6	chr3:113160600-113188600	Weak transcription	Psoas Muscle	Psoas
7	chr3:113160600-113190600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:113160600-113203800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr3:113160800-113189400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:113160800-113189400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:113160800-113189600	Weak transcription	NHEK	skin
12	chr3:113160800-113203800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:113160800-113203800	Weak transcription	Aorta	Aorta
14	chr3:113160800-113224800	Weak transcription	Placenta	Placenta
15	chr3:113160800-113232600	Weak transcription	Right Ventricle	heart
16	chr3:113161000-113189600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:113161000-113189600	Weak transcription	Brain Substantia Nigra	brain
18	chr3:113161000-113190800	Weak transcription	K562	blood
19	chr3:113161400-113192200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr3:113166200-113188800	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr3:113166600-113203800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:113169800-113191600	Weak transcription	Fetal Brain Male	brain
23	chr3:113172600-113203800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr3:113172800-113232800	Weak transcription	HSMMtube	muscle
25	chr3:113173800-113190200	Weak transcription	Fetal Heart	heart
26	chr3:113174600-113190200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr3:113175000-113190600	Weak transcription	Brain Germinal Matrix	brain
28	chr3:113176400-113233200	Weak transcription	Gastric	stomach
29	chr3:113177400-113225800	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr3:113177600-113224400	Weak transcription	Spleen	Spleen
31	chr3:113179600-113188200	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr3:113179600-113189600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr3:113179600-113191200	Weak transcription	Brain Angular Gyrus	brain
34	chr3:113179600-113192200	Weak transcription	Brain Cingulate Gyrus	brain
35	chr3:113179600-113192600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr3:113179600-113204000	Weak transcription	Fetal Muscle Trunk	muscle
37	chr3:113179600-113215200	Weak transcription	HMEC	breast
38	chr3:113179600-113217200	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr3:113179600-113232400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr3:113179600-113232800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr3:113180800-113189800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr3:113181000-113187800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr3:113181000-113189000	Strong transcription	Fetal Intestine Large	intestine
44	chr3:113182000-113188800	Weak transcription	Brain Anterior Caudate	brain
45	chr3:113182000-113191400	Weak transcription	Fetal Muscle Leg	muscle
46	chr3:113182000-113203800	Weak transcription	Esophagus	oesophagus
47	chr3:113182000-113203800	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr3:113183400-113189000	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr3:113183800-113188600	Weak transcription	Primary B cells from cord blood	blood
50	chr3:113184000-113190000	Weak transcription	Fetal Stomach	stomach

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