Variant report

Variant	rs7935346
Chromosome Location	chr11:47008379-47008380
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:47002891..47005569-chr11:47007322..47009966,3	MCF-7	breast:

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs1007738	0.85[GIH][hapmap];0.89[TSI][hapmap]
rs10501319	0.82[CEU][hapmap];0.83[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.83[ASN][1000 genomes]
rs1060573	0.91[GIH][hapmap]
rs10769211	0.85[GIH][hapmap];0.92[TSI][hapmap]
rs10769225	0.86[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10769226	0.87[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10769227	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10769228	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10838635	0.81[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10838640	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838641	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10838644	0.87[CEU][hapmap];0.83[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838646	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10838652	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10838658	0.88[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10838660	0.91[GIH][hapmap]
rs10838662	0.82[CEU][hapmap];0.83[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.83[ASN][1000 genomes]
rs10838663	0.83[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10838664	0.82[CEU][hapmap];0.83[CHB][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.90[TSI][hapmap];0.82[ASN][1000 genomes]
rs11039014	0.85[GIH][hapmap];0.92[TSI][hapmap]
rs11039028	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11039033	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039035	0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11039057	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11039074	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs11039080	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11039081	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11039097	0.91[GIH][hapmap]
rs11039105	0.91[GIH][hapmap]
rs11039112	0.91[GIH][hapmap]
rs11039119	0.86[GIH][hapmap]
rs11600292	0.87[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11600668	0.86[GIH][hapmap]
rs11601798	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11602250	0.87[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11603373	0.82[ASN][1000 genomes]
rs11608083	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12417519	0.88[CEU][hapmap];0.83[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.86[ASN][1000 genomes]
rs12574410	0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12796744	0.94[GIH][hapmap]
rs12807111	0.82[EUR][1000 genomes]
rs1551744	0.85[GIH][hapmap];0.89[TSI][hapmap]
rs17790204	0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1872896	0.91[GIH][hapmap]
rs2035068	0.81[EUR][1000 genomes]
rs2087215	0.88[CEU][hapmap];0.83[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[ASN][1000 genomes]
rs2279438	0.81[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2279439	0.82[CEU][hapmap];0.83[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.93[TSI][hapmap];0.82[ASN][1000 genomes]
rs2306035	0.81[EUR][1000 genomes]
rs34340483	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3922684	0.86[ASN][1000 genomes]
rs4269876	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4315028	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4394802	0.88[CEU][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4494268	1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4498951	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4528282	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4548577	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4576779	0.85[ASN][1000 genomes]
rs4581406	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4587689	0.88[CEU][hapmap];0.83[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[ASN][1000 genomes]
rs4752815	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4752816	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4752951	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4752957	0.94[GIH][hapmap]
rs4752965	0.83[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4752969	0.83[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.83[ASN][1000 genomes]
rs61896133	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61896136	0.86[ASN][1000 genomes]
rs6485715	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6485716	0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6485726	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6485739	0.91[GIH][hapmap]
rs7101374	0.85[GIH][hapmap];0.92[TSI][hapmap]
rs7103581	0.94[GIH][hapmap]
rs7107778	0.85[GIH][hapmap];0.92[TSI][hapmap]
rs7108822	0.83[CEU][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7108902	0.94[GIH][hapmap]
rs7111270	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7112854	0.88[CEU][hapmap];0.82[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7114683	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7121418	0.91[GIH][hapmap]
rs7123632	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7124648	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7125807	0.94[GIH][hapmap]
rs7126005	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7127741	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7128193	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7128650	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7130812	0.93[ASW][hapmap];0.85[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs7130947	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs747650	0.91[GIH][hapmap]
rs7929688	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7931260	0.94[GIH][hapmap]
rs7937410	0.82[CEU][hapmap];0.83[CHB][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.90[TSI][hapmap];0.82[ASN][1000 genomes]
rs7938169	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7939786	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7940240	0.82[CEU][hapmap];0.83[CHB][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.90[TSI][hapmap];0.82[ASN][1000 genomes]
rs7940441	0.95[CHD][hapmap];0.94[GIH][hapmap];0.85[JPT][hapmap];0.96[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7945315	0.94[GIH][hapmap]
rs7945558	0.88[CEU][hapmap];0.83[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7946709	0.94[GIH][hapmap]
rs7946739	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7950753	0.88[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7951979	0.82[ASN][1000 genomes]
rs901747	0.82[ASN][1000 genomes]
rs923324	0.87[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs964551	0.85[GIH][hapmap];0.92[TSI][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	esv1805201	chr11:46971012-47063429	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv1819852	chr11:46971012-47064542	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46974200-47008400	Weak transcription	Primary T cells from cord blood	blood
2	chr11:46980600-47014000	Weak transcription	Aorta	Aorta
3	chr11:46980600-47021000	Weak transcription	Ovary	ovary
4	chr11:46980600-47026000	Weak transcription	HSMM	muscle
5	chr11:46981200-47023400	Weak transcription	Primary B cells from peripheral blood	blood
6	chr11:46983000-47024000	Weak transcription	Primary B cells from cord blood	blood
7	chr11:46989200-47026000	Weak transcription	Dnd41	blood
8	chr11:46994000-47026000	Weak transcription	Colonic Mucosa	Colon
9	chr11:46994200-47021000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr11:46994400-47014800	Weak transcription	Esophagus	oesophagus
11	chr11:46996000-47011400	Weak transcription	Pancreas	Pancrea
12	chr11:46996000-47025800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr11:46998800-47023200	Weak transcription	Fetal Brain Male	brain
14	chr11:46999000-47010600	Weak transcription	Fetal Muscle Leg	muscle
15	chr11:46999000-47019400	Weak transcription	Fetal Stomach	stomach
16	chr11:46999200-47010000	Weak transcription	Fetal Brain Female	brain
17	chr11:46999600-47011000	Weak transcription	Fetal Lung	lung
18	chr11:46999600-47013000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr11:46999600-47023600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr11:47000000-47008400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr11:47000000-47008400	Weak transcription	Brain Germinal Matrix	brain
22	chr11:47000000-47008600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr11:47000000-47010800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr11:47000000-47011200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr11:47000000-47012800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr11:47000000-47024600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr11:47000200-47008400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr11:47000200-47025200	Weak transcription	NH-A	brain
29	chr11:47000200-47026400	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr11:47000400-47012000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr11:47000400-47012600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr11:47000400-47012800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr11:47000400-47023400	Weak transcription	Osteobl	bone
34	chr11:47000400-47024600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr11:47000400-47026600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr11:47000600-47012600	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr11:47000800-47008400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr11:47000800-47010800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr11:47001000-47008400	Weak transcription	Hela-S3	cervix
40	chr11:47001000-47013000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr11:47001800-47009400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr11:47002000-47012600	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr11:47002000-47017600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr11:47002200-47008800	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr11:47002200-47010000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr11:47002200-47012800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr11:47002400-47008600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr11:47003400-47009000	Weak transcription	Brain Anterior Caudate	brain
49	chr11:47003400-47009800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr11:47003400-47015600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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