Variant report

Variant	rs4581406
Chromosome Location	chr11:46962451-46962452
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:46960359..46964188-chr11:46967085..46970047,4	MCF-7	breast:
2	chr11:46958296..46961235-chr11:46961375..46963736,2	K562	blood:
3	chr11:46957787..46959806-chr11:46961787..46963719,2	MCF-7	breast:
4	chr11:46961899..46965031-chr11:46965080..46968958,4	K562	blood:
5	chr11:46957071..46960336-chr11:46960862..46965955,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000149179	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs1007738	0.83[GIH][hapmap];0.89[TSI][hapmap]
rs10734548	0.85[GIH][hapmap];0.93[TSI][hapmap]
rs10742784	0.80[EUR][1000 genomes]
rs10769211	0.83[GIH][hapmap];0.93[TSI][hapmap]
rs10769212	0.81[EUR][1000 genomes]
rs10769225	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10769226	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10769228	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10769234	0.86[CHB][hapmap]
rs10838629	0.82[EUR][1000 genomes]
rs10838635	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10838640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10838641	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10838644	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10838652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10838658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10838660	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs11039002	0.95[MEX][hapmap]
rs11039014	0.83[GIH][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes]
rs11039028	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039033	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11039035	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11039057	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11039074	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs11039080	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11039081	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11039097	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs11039105	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs11600292	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11601798	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11602250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11606992	0.83[ASN][1000 genomes]
rs11608083	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12417519	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.96[TSI][hapmap];0.81[ASN][1000 genomes]
rs12796744	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs12807111	0.88[EUR][1000 genomes]
rs1551744	0.83[GIH][hapmap];0.89[TSI][hapmap]
rs17790204	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1872896	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs2035068	0.87[EUR][1000 genomes]
rs2087215	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2290884	0.81[EUR][1000 genomes]
rs2306026	0.81[EUR][1000 genomes]
rs2306027	0.84[EUR][1000 genomes]
rs2306028	0.95[MEX][hapmap]
rs2306033	0.95[MEX][hapmap]
rs2306035	0.87[EUR][1000 genomes]
rs34340483	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3816614	0.81[EUR][1000 genomes]
rs3922684	0.81[ASN][1000 genomes]
rs4076557	0.95[MEX][hapmap]
rs4269876	0.81[ASN][1000 genomes]
rs4315028	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4394802	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4494268	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4498951	0.81[ASN][1000 genomes]
rs4528282	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4548577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4576779	0.80[ASN][1000 genomes]
rs4587689	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs4752815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4752816	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4752932	0.95[MEX][hapmap]
rs4752933	0.95[MEX][hapmap]
rs4752951	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4752957	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs4752962	0.83[CHB][hapmap]
rs4752965	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[YRI][hapmap]
rs61896133	0.81[ASN][1000 genomes]
rs61896136	0.81[ASN][1000 genomes]
rs6485715	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6485716	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6485726	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6485739	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs7101374	0.83[GIH][hapmap];0.93[TSI][hapmap]
rs7103581	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs7107778	0.85[GIH][hapmap];0.93[TSI][hapmap]
rs7108822	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7108902	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs7111270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7112854	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs7114683	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7118170	0.83[EUR][1000 genomes]
rs7123632	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7124648	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7125807	0.82[CHB][hapmap];0.94[GIH][hapmap]
rs7126005	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7127741	0.91[CEU][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7128193	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7128650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7130947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7929294	0.85[GIH][hapmap];0.92[TSI][hapmap]
rs7929688	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7931260	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs7935346	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]
rs7938169	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7939786	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7940441	0.81[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap];0.96[TSI][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7945315	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs7945558	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7946709	0.83[CHB][hapmap];0.94[GIH][hapmap]
rs7946739	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7950753	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs964551	0.85[GIH][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4581406	NUP160	cis	cerebellum	SCAN

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46958600-46973800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr11:46958800-46969400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:46959000-46962600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr11:46959000-46962800	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr11:46959000-46964600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr11:46959000-46964800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr11:46959000-46966200	Weak transcription	Placenta	Placenta
8	chr11:46959000-46966800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr11:46959000-46968000	Weak transcription	Spleen	Spleen
10	chr11:46959000-46968800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:46959000-46969000	Weak transcription	Brain Substantia Nigra	brain
12	chr11:46959000-46969200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr11:46959000-46969400	Weak transcription	Colonic Mucosa	Colon
14	chr11:46959000-46969400	Weak transcription	Colon Smooth Muscle	Colon
15	chr11:46959000-46969400	Weak transcription	Pancreas	Pancrea
16	chr11:46959000-46969600	Weak transcription	Rectal Smooth Muscle	rectum
17	chr11:46959000-46969600	Weak transcription	HSMMtube	muscle
18	chr11:46959000-46973400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr11:46959000-46973600	Weak transcription	HUVEC	blood vessel
20	chr11:46959000-46973800	Weak transcription	Primary T cells from cord blood	blood
21	chr11:46959000-46973800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr11:46959000-46973800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr11:46959000-46975600	Weak transcription	Fetal Muscle Trunk	muscle
24	chr11:46959000-46977000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr11:46959000-46980000	Weak transcription	Aorta	Aorta
26	chr11:46959000-46980000	Weak transcription	Fetal Muscle Leg	muscle
27	chr11:46959000-46980000	Weak transcription	Ovary	ovary
28	chr11:46959000-46980200	Weak transcription	Primary B cells from cord blood	blood
29	chr11:46959000-46980200	Weak transcription	Gastric	stomach
30	chr11:46959000-46980200	Weak transcription	Lung	lung
31	chr11:46959000-46980200	Weak transcription	Thymus	Thymus
32	chr11:46959000-46981000	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr11:46959000-46982200	Weak transcription	Fetal Kidney	kidney
34	chr11:46959000-46982400	Weak transcription	Primary T helper cells fromperipheralblood	blood
35	chr11:46959000-46982600	Weak transcription	Fetal Thymus	thymus
36	chr11:46959000-46998600	Weak transcription	Left Ventricle	heart
37	chr11:46959200-46963400	Weak transcription	Fetal Intestine Small	intestine
38	chr11:46959200-46964600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr11:46959200-46965200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr11:46959200-46965800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr11:46959200-46966000	Weak transcription	HMEC	breast
42	chr11:46959200-46966000	Weak transcription	NHEK	skin
43	chr11:46959200-46966200	Strong transcription	Hela-S3	cervix
44	chr11:46959200-46968200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr11:46959200-46968400	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr11:46959200-46968400	Weak transcription	A549	lung
47	chr11:46959200-46968400	Weak transcription	NH-A	brain
48	chr11:46959200-46968600	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr11:46959200-46968600	Weak transcription	HepG2	liver
50	chr11:46959200-46968600	Weak transcription	NHDF-Ad	bronchial

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