Variant report

Variant	rs7946152
Chromosome Location	chr11:59553381-59553382
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	chr11:59545569..59549686-chr11:59550109..59554900,5	MCF-7	breast:
2	chr11:59520935..59525781-chr11:59552803..59557885,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166900	Chromatin interaction
ENSG00000254477	Chromatin interaction
ENSG00000234964	Chromatin interaction

Extended variants
information (count: 173 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:172)

rs_ID	r²[population]
rs10501380	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1121991	0.92[EUR][1000 genomes]
rs11230020	0.80[EUR][1000 genomes]
rs11230027	0.80[EUR][1000 genomes]
rs11230037	0.88[EUR][1000 genomes]
rs1151063	1.00[EUR][1000 genomes]
rs1151064	1.00[EUR][1000 genomes]
rs11821333	0.96[EUR][1000 genomes]
rs11821465	0.88[EUR][1000 genomes]
rs12272588	0.92[EUR][1000 genomes]
rs12278859	0.88[EUR][1000 genomes]
rs12278910	0.80[EUR][1000 genomes]
rs12280606	0.88[EUR][1000 genomes]
rs12285828	0.90[EUR][1000 genomes]
rs12287975	0.84[EUR][1000 genomes]
rs12289162	0.88[EUR][1000 genomes]
rs12292682	0.92[EUR][1000 genomes]
rs1287111	1.00[EUR][1000 genomes]
rs1287441	0.80[EUR][1000 genomes]
rs1287446	0.80[EUR][1000 genomes]
rs1287448	0.80[EUR][1000 genomes]
rs1290457	0.96[EUR][1000 genomes]
rs1290459	0.96[EUR][1000 genomes]
rs1299800	0.80[EUR][1000 genomes]
rs17046	0.96[EUR][1000 genomes]
rs17153910	0.80[EUR][1000 genomes]
rs17154029	0.96[EUR][1000 genomes]
rs17154134	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154157	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154165	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154169	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154175	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154180	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154195	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154200	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154203	0.82[AMR][1000 genomes]
rs17154205	0.85[AMR][1000 genomes]
rs17154222	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17154227	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1938690	0.88[EUR][1000 genomes]
rs2186597	0.92[EUR][1000 genomes]
rs2447310	0.81[EUR][1000 genomes]
rs2508335	0.81[EUR][1000 genomes]
rs2509274	1.00[EUR][1000 genomes]
rs2509275	0.98[EUR][1000 genomes]
rs2509276	1.00[EUR][1000 genomes]
rs2509279	0.81[EUR][1000 genomes]
rs2509290	0.96[EUR][1000 genomes]
rs2509730	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2927182	0.85[EUR][1000 genomes]
rs2927183	0.96[EUR][1000 genomes]
rs2957223	0.96[EUR][1000 genomes]
rs3110322	0.96[EUR][1000 genomes]
rs3132748	0.96[EUR][1000 genomes]
rs34350918	0.88[EUR][1000 genomes]
rs3781792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781793	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3862660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41384548	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4301803	0.92[EUR][1000 genomes]
rs4356243	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4393334	0.92[EUR][1000 genomes]
rs4515985	0.92[EUR][1000 genomes]
rs471369	0.81[EUR][1000 genomes]
rs472152	0.81[EUR][1000 genomes]
rs472177	0.96[EUR][1000 genomes]
rs473087	0.96[EUR][1000 genomes]
rs473490	0.80[EUR][1000 genomes]
rs474844	0.96[EUR][1000 genomes]
rs475706	0.96[EUR][1000 genomes]
rs477577	0.81[EUR][1000 genomes]
rs477729	0.81[EUR][1000 genomes]
rs478167	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs479264	0.85[EUR][1000 genomes]
rs481893	0.81[EUR][1000 genomes]
rs482355	1.00[EUR][1000 genomes]
rs482356	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs484030	0.81[EUR][1000 genomes]
rs484814	0.85[EUR][1000 genomes]
rs484895	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs485008	1.00[EUR][1000 genomes]
rs485803	0.81[EUR][1000 genomes]
rs486587	1.00[EUR][1000 genomes]
rs488331	0.80[EUR][1000 genomes]
rs492652	0.96[EUR][1000 genomes]
rs494110	0.81[EUR][1000 genomes]
rs495564	0.80[EUR][1000 genomes]
rs496938	0.81[EUR][1000 genomes]
rs497596	0.85[EUR][1000 genomes]
rs498099	0.81[EUR][1000 genomes]
rs498299	0.81[EUR][1000 genomes]
rs498388	0.96[EUR][1000 genomes]
rs499054	0.81[EUR][1000 genomes]
rs504016	1.00[EUR][1000 genomes]
rs507235	1.00[EUR][1000 genomes]
rs510122	1.00[EUR][1000 genomes]
rs511785	1.00[EUR][1000 genomes]
rs511957	0.96[EUR][1000 genomes]
rs512194	0.92[EUR][1000 genomes]
rs512695	1.00[EUR][1000 genomes]
rs513979	0.81[EUR][1000 genomes]
rs516912	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs519605	1.00[EUR][1000 genomes]
rs519865	0.80[EUR][1000 genomes]
rs519873	0.80[EUR][1000 genomes]
rs521330	1.00[EUR][1000 genomes]
rs523016	1.00[EUR][1000 genomes]
rs524102	0.81[EUR][1000 genomes]
rs526672	0.81[EUR][1000 genomes]
rs528525	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs529270	1.00[EUR][1000 genomes]
rs532838	0.80[EUR][1000 genomes]
rs533166	0.85[EUR][1000 genomes]
rs536544	0.85[EUR][1000 genomes]
rs536910	0.80[EUR][1000 genomes]
rs537625	0.96[EUR][1000 genomes]
rs538169	0.81[EUR][1000 genomes]
rs540684	0.96[EUR][1000 genomes]
rs549086	0.85[EUR][1000 genomes]
rs550189	0.96[EUR][1000 genomes]
rs550822	0.80[EUR][1000 genomes]
rs552601	0.96[EUR][1000 genomes]
rs553700	0.80[EUR][1000 genomes]
rs554149	0.96[EUR][1000 genomes]
rs554848	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs555175	1.00[EUR][1000 genomes]
rs55667192	0.80[EUR][1000 genomes]
rs561029	0.81[EUR][1000 genomes]
rs561604	0.80[EUR][1000 genomes]
rs562657	0.81[EUR][1000 genomes]
rs563267	0.81[EUR][1000 genomes]
rs563276	0.80[EUR][1000 genomes]
rs563800	0.85[EUR][1000 genomes]
rs565983	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs567485	1.00[EUR][1000 genomes]
rs567603	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs569326	1.00[EUR][1000 genomes]
rs573592	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57529518	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57871852	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs579192	0.96[EUR][1000 genomes]
rs579373	1.00[EUR][1000 genomes]
rs580242	0.96[EUR][1000 genomes]
rs581265	0.81[EUR][1000 genomes]
rs58169611	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58775794	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60009036	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60094706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61463035	0.82[AMR][1000 genomes]
rs61636608	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7108731	0.81[EUR][1000 genomes]
rs7114773	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7117509	0.85[EUR][1000 genomes]
rs7119778	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7123969	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7126593	0.92[EUR][1000 genomes]
rs7131059	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73486962	0.88[EUR][1000 genomes]
rs73486971	0.88[EUR][1000 genomes]
rs73486979	0.88[EUR][1000 genomes]
rs73486988	0.92[EUR][1000 genomes]
rs73486997	0.92[EUR][1000 genomes]
rs7933970	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7937684	0.82[AMR][1000 genomes]
rs7941643	0.96[EUR][1000 genomes]
rs7947036	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947514	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7952024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8280	0.80[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046086	chr11:59520424-59561455	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59524400-59557000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr11:59524600-59557400	Weak transcription	Colon Smooth Muscle	Colon
3	chr11:59524600-59573800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:59524800-59553400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr11:59524800-59555400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr11:59525600-59557800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr11:59534400-59559600	Weak transcription	Fetal Brain Female	brain
8	chr11:59534600-59554200	Weak transcription	HSMMtube	muscle
9	chr11:59534600-59571600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr11:59537600-59570400	Weak transcription	Fetal Kidney	kidney
11	chr11:59539600-59554200	Weak transcription	Right Ventricle	heart
12	chr11:59539800-59554400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr11:59540800-59556200	Weak transcription	Primary B cells from peripheral blood	blood
14	chr11:59540800-59559600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr11:59541000-59560000	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr11:59541000-59573600	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr11:59541800-59559200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr11:59542200-59571400	Weak transcription	Thymus	Thymus
19	chr11:59542600-59554200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr11:59542800-59557800	Weak transcription	Fetal Stomach	stomach
21	chr11:59543000-59553400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr11:59543000-59554200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr11:59543200-59554200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr11:59543200-59554200	Weak transcription	Adipose Nuclei	Adipose
25	chr11:59543200-59554600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr11:59543200-59557000	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr11:59543200-59559200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr11:59543600-59554200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr11:59544400-59553400	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr11:59544400-59554000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr11:59544400-59554000	Weak transcription	NHLF	lung
32	chr11:59544400-59573200	Weak transcription	Psoas Muscle	Psoas
33	chr11:59545000-59553400	Weak transcription	Hela-S3	cervix
34	chr11:59545200-59553400	Weak transcription	HMEC	breast
35	chr11:59545800-59554400	Weak transcription	Brain Substantia Nigra	brain
36	chr11:59546000-59554200	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr11:59546000-59554400	Weak transcription	Liver	Liver
38	chr11:59546000-59554400	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr11:59546000-59554400	Weak transcription	Gastric	stomach
40	chr11:59546000-59556600	Weak transcription	Brain Angular Gyrus	brain
41	chr11:59546000-59557800	Weak transcription	Brain Anterior Caudate	brain
42	chr11:59546000-59560800	Weak transcription	Brain Cingulate Gyrus	brain
43	chr11:59546200-59554000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr11:59546200-59554000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr11:59546200-59554000	Strong transcription	Primary neutrophils fromperipheralblood	blood
46	chr11:59546200-59554000	Weak transcription	A549	lung
47	chr11:59546400-59553400	Weak transcription	HepG2	liver
48	chr11:59546400-59554600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr11:59546400-59568800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr11:59547000-59553800	Weak transcription	Colonic Mucosa	Colon

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