Variant report

Variant	rs10892580
Chromosome Location	chr11:120334149-120334150
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	chr11:120328073..120330924-chr11:120333119..120334796,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196914	Chromatin interaction
ENSG00000269601	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10502236	0.95[EUR][1000 genomes]
rs10892573	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10892579	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10892581	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217837	0.85[EUR][1000 genomes]
rs11217847	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217853	0.90[EUR][1000 genomes]
rs11217859	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217860	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217861	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11217865	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217868	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217869	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217871	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217872	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11217873	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217879	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217881	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217883	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217886	0.83[EUR][1000 genomes]
rs11217889	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217890	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11600200	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11600558	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11600723	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11602796	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606928	1.00[ASN][1000 genomes]
rs11607944	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11820277	1.00[ASN][1000 genomes]
rs12361340	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12361642	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12362794	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12363974	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12363975	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2120430	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35912781	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4537767	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56329702	0.83[EUR][1000 genomes]
rs57912596	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61898768	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61900794	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61900795	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67551874	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67617613	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7108596	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7110955	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7120040	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7120174	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73582205	1.00[ASN][1000 genomes]
rs73584117	1.00[ASN][1000 genomes]
rs73584140	1.00[ASN][1000 genomes]
rs747419	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs766894	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7943147	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7948299	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9625	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9666435	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9666441	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054057	chr11:119781953-120519770	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv541178	chr11:119781953-120519770	Weak transcription Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv529003	chr11:120209386-120355230	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120301400-120355200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:120303600-120355600	Weak transcription	Stomach Mucosa	stomach
3	chr11:120304800-120359400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr11:120306600-120341200	Strong transcription	Osteobl	bone
5	chr11:120306800-120341600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:120307000-120335800	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr11:120307000-120341200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr11:120307600-120334600	Strong transcription	Skeletal Muscle Female	skeletal muscle
9	chr11:120308000-120341800	Strong transcription	Fetal Intestine Large	intestine
10	chr11:120308000-120352600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr11:120308000-120359000	Strong transcription	Placenta	Placenta
12	chr11:120308200-120336400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr11:120308400-120334600	Strong transcription	Rectal Mucosa Donor 31	rectum
14	chr11:120308400-120339000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr11:120308400-120339000	Strong transcription	Muscle Satellite Cultured Cells	--
16	chr11:120308400-120357800	Strong transcription	Adipose Nuclei	Adipose
17	chr11:120310000-120336000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr11:120310200-120350600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr11:120310400-120358000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr11:120311200-120357200	Strong transcription	Duodenum Smooth Muscle	Duodenum
21	chr11:120312200-120339000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr11:120312400-120341800	Strong transcription	Fetal Muscle Leg	muscle
23	chr11:120312400-120351800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr11:120312400-120354000	Strong transcription	Duodenum Mucosa	Duodenum
25	chr11:120312800-120357800	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr11:120314200-120362200	Strong transcription	Liver	Liver
27	chr11:120314800-120342000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr11:120315200-120353000	Strong transcription	Fetal Brain Female	brain
29	chr11:120315400-120342400	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr11:120315800-120335200	Strong transcription	Brain Inferior Temporal Lobe	brain
31	chr11:120316400-120382000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr11:120317400-120343200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr11:120319200-120339200	Strong transcription	Fetal Kidney	kidney
34	chr11:120319200-120341400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
35	chr11:120319800-120342400	Strong transcription	HUVEC	blood vessel
36	chr11:120320000-120350600	Weak transcription	Hela-S3	cervix
37	chr11:120320000-120358000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr11:120320200-120335600	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr11:120320200-120357600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr11:120321000-120338800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr11:120321000-120358000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr11:120321200-120350800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr11:120323200-120335800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr11:120323600-120348800	Weak transcription	Spleen	Spleen
45	chr11:120325600-120334800	Weak transcription	Fetal Intestine Small	intestine
46	chr11:120325600-120335800	Weak transcription	Gastric	stomach
47	chr11:120325600-120336000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr11:120325600-120350600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr11:120326200-120335400	Weak transcription	Esophagus	oesophagus
50	chr11:120327200-120338800	Strong transcription	Left Ventricle	heart

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