Variant report

Variant	rs11946103
Chromosome Location	chr4:102212698-102212699
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	chr4:102211391..102213772-chr4:102219486..102221204,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1011849	0.91[AMR][1000 genomes]
rs11943655	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1441431	0.91[AMR][1000 genomes]
rs1441434	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1561722	0.82[AMR][1000 genomes]
rs17031168	0.91[AMR][1000 genomes]
rs17031172	0.91[AMR][1000 genomes]
rs17031175	0.91[AMR][1000 genomes]
rs17031176	0.91[AMR][1000 genomes]
rs17031180	0.91[AMR][1000 genomes]
rs17031182	0.91[AMR][1000 genomes]
rs3974659	0.91[AMR][1000 genomes]
rs4488940	1.00[AMR][1000 genomes]
rs4504259	1.00[AMR][1000 genomes]
rs4637408	1.00[AMR][1000 genomes]
rs60438397	0.91[AMR][1000 genomes]
rs60984918	0.91[AMR][1000 genomes]
rs6532924	0.91[AMR][1000 genomes]
rs6532925	0.91[AMR][1000 genomes]
rs6532926	0.91[AMR][1000 genomes]
rs6812094	0.91[AMR][1000 genomes]
rs6827528	1.00[AMR][1000 genomes]
rs6828025	1.00[AMR][1000 genomes]
rs6830390	1.00[AMR][1000 genomes]
rs6831471	0.91[AMR][1000 genomes]
rs6832020	0.91[AMR][1000 genomes]
rs6834721	1.00[AMR][1000 genomes]
rs6837858	0.91[AMR][1000 genomes]
rs6842191	0.91[AMR][1000 genomes]
rs6844844	0.91[AMR][1000 genomes]
rs6846554	0.91[AMR][1000 genomes]
rs6852282	0.91[AMR][1000 genomes]
rs73835916	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835923	1.00[AMR][1000 genomes]
rs73835924	1.00[AMR][1000 genomes]
rs73835931	1.00[AMR][1000 genomes]
rs73835932	0.91[AMR][1000 genomes]
rs73835933	1.00[AMR][1000 genomes]
rs73835934	1.00[AMR][1000 genomes]
rs73835935	0.91[AMR][1000 genomes]
rs73835936	0.91[AMR][1000 genomes]
rs73835937	0.91[AMR][1000 genomes]
rs73835938	0.91[AMR][1000 genomes]
rs73835944	0.82[AMR][1000 genomes]
rs7655806	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7661895	0.91[AMR][1000 genomes]
rs7664396	0.91[AMR][1000 genomes]
rs7671524	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	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 miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv879676	chr4:102202285-102340930	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102201000-102213000	Weak transcription	Fetal Heart	heart
2	chr4:102201200-102218200	Weak transcription	NHEK	skin
3	chr4:102201400-102214200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr4:102207000-102216600	Weak transcription	NH-A	brain
5	chr4:102207400-102214200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr4:102207400-102214200	Weak transcription	Esophagus	oesophagus
7	chr4:102207600-102226400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr4:102208600-102212800	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr4:102208600-102212800	Enhancers	Brain Anterior Caudate	brain
10	chr4:102208600-102213200	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr4:102209400-102214200	Weak transcription	Aorta	Aorta
12	chr4:102209400-102214400	Weak transcription	Right Ventricle	heart
13	chr4:102209800-102214400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr4:102210200-102212800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr4:102210200-102213600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:102210200-102214600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr4:102210200-102215600	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr4:102210200-102225800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr4:102210600-102214200	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr4:102210600-102215800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr4:102210800-102212800	Enhancers	Primary B cells from peripheral blood	blood
22	chr4:102211000-102213200	Enhancers	Small Intestine	intestine
23	chr4:102211000-102214200	Enhancers	Ovary	ovary
24	chr4:102211200-102215400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr4:102211200-102215600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:102211200-102219000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr4:102211400-102214200	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr4:102211600-102213600	Enhancers	Left Ventricle	heart
29	chr4:102211800-102212800	Enhancers	Adipose Nuclei	Adipose
30	chr4:102211800-102212800	Enhancers	Fetal Kidney	kidney
31	chr4:102211800-102212800	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr4:102211800-102213000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr4:102211800-102213000	Enhancers	Colon Smooth Muscle	Colon
34	chr4:102211800-102213200	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr4:102211800-102213400	Enhancers	Stomach Mucosa	stomach
36	chr4:102211800-102214400	Weak transcription	Primary B cells from cord blood	blood
37	chr4:102212000-102212800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr4:102212000-102212800	Enhancers	Rectal Smooth Muscle	rectum
39	chr4:102212000-102213400	Enhancers	Pancreas	Pancrea
40	chr4:102212000-102214000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr4:102212200-102212800	Weak transcription	Right Atrium	heart
42	chr4:102212200-102213600	Enhancers	Brain Angular Gyrus	brain
43	chr4:102212200-102220600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr4:102212200-102226200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr4:102212400-102213000	Enhancers	A549	lung
46	chr4:102212400-102213400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
47	chr4:102212400-102216600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr4:102212600-102212800	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr4:102212600-102212800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr4:102212600-102212800	Enhancers	Primary neutrophils fromperipheralblood	blood

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