Variant report

Variant	rs7623213
Chromosome Location	chr3:113106400-113106401
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11914580	0.85[ASN][1000 genomes]
rs11914782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919031	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11927007	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11929418	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1463641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463642	1.00[CEU][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16845107	0.82[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16860847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16860861	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16860919	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861130	0.85[JPT][hapmap]
rs16861165	0.85[JPT][hapmap]
rs2007579	0.84[EUR][1000 genomes]
rs2254267	0.85[JPT][hapmap]
rs2399483	0.86[EUR][1000 genomes]
rs2399486	0.85[JPT][hapmap]
rs3732799	0.85[JPT][hapmap]
rs3732807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732808	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];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732810	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3912553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4103250	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4331647	0.81[CHB][hapmap]
rs4508746	0.85[JPT][hapmap]
rs4580515	0.85[JPT][hapmap]
rs4621301	0.81[CHB][hapmap]
rs56794625	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57566915	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58686141	0.86[EUR][1000 genomes]
rs58884094	0.86[EUR][1000 genomes]
rs58918720	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59048818	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59631554	0.86[EUR][1000 genomes]
rs59666592	0.86[EUR][1000 genomes]
rs59911537	0.97[AFR][1000 genomes]
rs60079554	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60264945	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60487041	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60706093	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60874496	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61000519	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61258912	0.97[AFR][1000 genomes]
rs6438139	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6764524	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6776729	0.81[CHB][hapmap]
rs6776974	0.81[CHB][hapmap]
rs6780604	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6780755	0.85[JPT][hapmap]
rs6782784	0.81[CHB][hapmap]
rs6790846	0.81[CHB][hapmap]
rs6792091	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794923	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6795288	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6805231	0.85[JPT][hapmap]
rs6808878	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72946779	0.86[EUR][1000 genomes]
rs72950827	0.86[EUR][1000 genomes]
rs7429847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7614678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7617723	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7618598	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7618941	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7619717	0.83[AFR][1000 genomes]
rs7620700	0.84[JPT][hapmap]
rs7621213	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7621337	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7622952	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7627145	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7629899	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7632927	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7634526	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7634713	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7636986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7640376	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7644337	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7646262	0.85[JPT][hapmap]
rs7648620	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7650500	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7650771	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9682108	0.86[EUR][1000 genomes]
rs9848190	0.81[CHB][hapmap]

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	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

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113042200-113116800	Weak transcription	Primary B cells from cord blood	blood
2	chr3:113066400-113117600	Weak transcription	Fetal Muscle Leg	muscle
3	chr3:113068400-113117000	Weak transcription	Thymus	Thymus
4	chr3:113072400-113117200	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr3:113074400-113184400	Weak transcription	Hela-S3	cervix
6	chr3:113078600-113109800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:113080000-113114200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr3:113080000-113123800	Weak transcription	Primary B cells from peripheral blood	blood
9	chr3:113080200-113117600	Weak transcription	Psoas Muscle	Psoas
10	chr3:113080800-113143800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr3:113081600-113121200	Weak transcription	Ovary	ovary
12	chr3:113081600-113121200	Weak transcription	Pancreas	Pancrea
13	chr3:113081800-113116600	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:113082200-113113200	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:113086200-113106400	Weak transcription	Fetal Stomach	stomach
16	chr3:113090800-113106600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr3:113090800-113121200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:113092400-113134200	Weak transcription	Fetal Kidney	kidney
19	chr3:113093600-113134800	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr3:113094200-113108800	Weak transcription	Brain Hippocampus Middle	brain
21	chr3:113096400-113106600	Weak transcription	GM12878-XiMat	blood
22	chr3:113096600-113121200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr3:113097800-113117800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr3:113098200-113117000	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:113098800-113134800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr3:113099000-113134800	Weak transcription	A549	lung
27	chr3:113099400-113106800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr3:113099400-113113400	Weak transcription	Left Ventricle	heart
29	chr3:113099600-113144800	Weak transcription	Rectal Smooth Muscle	rectum
30	chr3:113099800-113106800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:113100000-113108200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr3:113101800-113121200	Weak transcription	Primary hematopoietic stem cells	blood
33	chr3:113102200-113148800	Weak transcription	Brain Angular Gyrus	brain
34	chr3:113102400-113144400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:113102800-113122600	Weak transcription	Spleen	Spleen
36	chr3:113103200-113106400	Weak transcription	Aorta	Aorta
37	chr3:113103200-113108400	Weak transcription	Stomach Mucosa	stomach
38	chr3:113103200-113126200	Weak transcription	Right Ventricle	heart
39	chr3:113104000-113117000	Weak transcription	Adipose Nuclei	Adipose
40	chr3:113104000-113117600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr3:113104000-113127400	Weak transcription	Duodenum Mucosa	Duodenum
42	chr3:113104200-113108800	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr3:113105200-113122000	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr3:113105400-113107200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr3:113105400-113107400	Strong transcription	Primary T cells from cord blood	blood
46	chr3:113105600-113107000	Strong transcription	Liver	Liver
47	chr3:113105600-113107000	Strong transcription	Esophagus	oesophagus
48	chr3:113105600-113107200	Strong transcription	Fetal Intestine Small	intestine
49	chr3:113105600-113124200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:113105800-113106800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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