Variant report

Variant	rs565983
Chromosome Location	chr11:59534139-59534140
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:59533582..59535558-chr11:59538883..59542385,3	K562	blood:
2	chr11:59533196..59536602-chr11:59539532..59544445,5	MCF-7	breast:
3	chr11:59528968..59531092-chr11:59531275..59534785,3	MCF-7	breast:
4	chr11:59532568..59535193-chr11:59553721..59556232,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166900	Chromatin interaction

Extended variants
information (count: 176 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:175)

rs_ID	r²[population]
rs10501380	0.84[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]
rs12797334	0.80[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	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154138	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154146	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154149	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154157	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154165	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154169	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154175	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154180	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154195	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154200	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154222	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17154227	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1783212	0.80[EUR][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	0.89[AFR][1000 genomes];0.87[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]
rs3015969	0.80[EUR][1000 genomes]
rs3110322	0.96[EUR][1000 genomes]
rs3132748	0.96[EUR][1000 genomes]
rs34350918	0.88[EUR][1000 genomes]
rs3781792	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781793	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3862660	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41384548	0.86[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	0.88[AFR][1000 genomes];0.89[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	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs482356	0.86[AFR][1000 genomes];0.84[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	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs485008	0.85[AFR][1000 genomes];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]
rs4939294	0.80[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	0.86[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs512695	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs513979	0.81[EUR][1000 genomes]
rs516912	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];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	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs523016	1.00[EUR][1000 genomes]
rs524102	0.81[EUR][1000 genomes]
rs526672	0.81[EUR][1000 genomes]
rs528525	0.89[AFR][1000 genomes];0.87[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	0.86[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]
rs567485	1.00[EUR][1000 genomes]
rs567603	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs569326	1.00[EUR][1000 genomes]
rs573592	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57529518	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57871852	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs579192	0.96[EUR][1000 genomes]
rs579373	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs580242	0.96[EUR][1000 genomes]
rs581265	0.81[EUR][1000 genomes]
rs58169611	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58775794	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60009036	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60094706	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61636608	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6591541	0.80[EUR][1000 genomes]
rs693110	0.80[EUR][1000 genomes]
rs7108731	0.81[EUR][1000 genomes]
rs7114773	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7117509	0.85[EUR][1000 genomes]
rs7119778	0.81[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	0.81[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	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7941643	0.96[EUR][1000 genomes]
rs7946152	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947036	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947514	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7952024	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7952367	0.80[EUR][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:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59524000-59539200	Weak transcription	Liver	Liver
2	chr11:59524200-59545200	Weak transcription	Brain Hippocampus Middle	brain
3	chr11:59524400-59534200	Weak transcription	Aorta	Aorta
4	chr11:59524400-59542200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr11:59524400-59545600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:59524400-59557000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr11:59524600-59537200	Weak transcription	NHLF	lung
8	chr11:59524600-59538400	Weak transcription	Brain Anterior Caudate	brain
9	chr11:59524600-59557400	Weak transcription	Colon Smooth Muscle	Colon
10	chr11:59524600-59573800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:59524800-59534200	Weak transcription	Spleen	Spleen
12	chr11:59524800-59536400	Weak transcription	NHDF-Ad	bronchial
13	chr11:59524800-59539400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr11:59524800-59540600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr11:59524800-59543000	Weak transcription	A549	lung
16	chr11:59524800-59543800	Weak transcription	NH-A	brain
17	chr11:59524800-59553400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr11:59524800-59555400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr11:59525000-59539000	Weak transcription	HUVEC	blood vessel
20	chr11:59525200-59537400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr11:59525200-59540600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr11:59525200-59543600	Weak transcription	Hela-S3	cervix
23	chr11:59525400-59540600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr11:59525400-59543400	Weak transcription	HMEC	breast
25	chr11:59525400-59551200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr11:59525600-59557800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr11:59526000-59541600	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr11:59527800-59541800	Weak transcription	Fetal Stomach	stomach
29	chr11:59529400-59541000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr11:59530000-59534200	Weak transcription	Adipose Nuclei	Adipose
31	chr11:59530000-59540600	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr11:59530200-59534200	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr11:59530400-59540600	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr11:59530400-59540600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr11:59530600-59538400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr11:59530800-59540400	Weak transcription	NHEK	skin
37	chr11:59530800-59545000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr11:59531000-59540200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr11:59531000-59541600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr11:59531600-59536800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr11:59532000-59536000	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr11:59532000-59536400	Enhancers	Fetal Intestine Large	intestine
43	chr11:59532000-59539600	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr11:59532000-59543800	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr11:59532400-59535200	Enhancers	Rectal Mucosa Donor 29	rectum
46	chr11:59532600-59534200	Enhancers	Duodenum Mucosa	Duodenum
47	chr11:59532600-59535000	Enhancers	Placenta	Placenta
48	chr11:59532600-59535400	Enhancers	Small Intestine	intestine
49	chr11:59532600-59535800	Enhancers	Stomach Mucosa	stomach
50	chr11:59532600-59536400	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links