Variant report

Variant	rs7621003
Chromosome Location	chr3:49411404-49411405
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 19 )

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs1050088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs1050450	0.94[ASN][1000 genomes]
rs10640	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs10865955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11130192	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11130193	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11130194	0.88[EUR][1000 genomes]
rs11130196	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11130199	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.88[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs11130202	1.00[CEU][hapmap]
rs11706370	0.88[JPT][hapmap]
rs11711485	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs11711536	0.94[ASN][1000 genomes]
rs11715915	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs11716974	0.82[ASN][1000 genomes]
rs11720264	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[YRI][hapmap]
rs11922013	0.85[JPT][hapmap]
rs12489092	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap]
rs13078949	0.85[CEU][hapmap];0.88[CHB][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap]
rs13086611	0.94[ASN][1000 genomes]
rs13087851	0.94[ASN][1000 genomes]
rs13090388	0.94[ASN][1000 genomes]
rs13096760	0.90[EUR][1000 genomes]
rs1464566	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1464567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1464568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1568661	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs1568662	0.82[EUR][1000 genomes]
rs17080528	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.94[ASN][1000 genomes]
rs17595772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17650792	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1800668	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs1801143	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs1987628	0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs2117939	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2878298	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34588335	0.94[ASN][1000 genomes]
rs34937635	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35169793	0.94[ASN][1000 genomes]
rs35701831	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.92[YRI][hapmap];0.83[EUR][1000 genomes]
rs3811697	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs3811699	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.94[ASN][1000 genomes]
rs3870338	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap]
rs3877784	0.83[EUR][1000 genomes]
rs3924462	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.83[EUR][1000 genomes]
rs4459909	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4563439	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4625	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs4855839	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap]
rs4855842	0.81[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4855843	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4855859	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.83[EUR][1000 genomes]
rs4855861	0.81[EUR][1000 genomes]
rs4855864	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4855866	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4855873	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4855877	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4955412	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4955438	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55957735	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs59152804	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62259939	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62259942	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6446264	0.94[ASN][1000 genomes]
rs6446272	0.86[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap]
rs6446274	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs67485053	0.88[ASN][1000 genomes]
rs6766131	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs6773518	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6779524	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs6784820	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6792911	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6793308	0.94[ASN][1000 genomes]
rs6797765	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809216	0.94[ASN][1000 genomes]
rs6997	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs7371895	0.81[EUR][1000 genomes]
rs7373849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7622302	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs7623659	0.94[ASN][1000 genomes]
rs7631908	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7633271	0.88[JPT][hapmap]
rs7637999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.83[EUR][1000 genomes]
rs7643586	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7643845	0.82[EUR][1000 genomes]
rs7645445	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7646366	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs7648841	0.94[ASN][1000 genomes]
rs885592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9814873	0.92[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs9827021	0.88[JPT][hapmap]
rs9837027	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs9841110	0.88[JPT][hapmap]
rs9853683	0.93[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs9858280	0.86[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap]
rs9878943	0.86[JPT][hapmap]

mRNA abundance (count:19)

SNP	Gene	Cis/trans	Tissue	Source
rs7621003	WDR6	cis	Adipose Subcutaneous	GTEx
rs7621003	WDR6	cis	lung	GTEx
rs7621003	WDR6	cis	Skin Sun Exposed Lower leg	GTEx
rs7621003	WDR6	cis	parietal	SCAN
rs7621003	WDR6	cis	Muscle Skeletal	GTEx
rs7621003	AMT	cis	cerebellum	SCAN
rs7621003	WDR6	cis	cerebellum	SCAN
rs7621003	CCDC71	cis	cerebellum	SCAN
rs7621003	DALRD3	cis	cerebellum	SCAN
rs7621003	WDR6	cis	Whole Blood	GTEx
rs7621003	WDR6	cis	Artery Tibial	GTEx
rs7621003	P4HTM	cis	parietal	SCAN
rs7621003	IP6K2	cis	cerebellum	SCAN
rs7621003	P4HTM	cis	cerebellum	SCAN
rs7621003	GNL3	cis	cerebellum	SCAN
rs7621003	PH-4	Cis_1M	lymphoblastoid	RTeQTL
rs7621003	AMT	cis	Thyroid	GTEx
rs7621003	WDR6	cis	Nerve Tibial	GTEx
rs7621003	QRICH1	cis	parietal	SCAN

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49396400-49413600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:49396400-49418600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:49396600-49413200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:49396600-49413200	Strong transcription	Fetal Muscle Trunk	muscle
5	chr3:49396600-49413800	Strong transcription	Primary B cells from peripheral blood	blood
6	chr3:49396600-49414400	Weak transcription	Fetal Brain Male	brain
7	chr3:49396800-49412800	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr3:49396800-49413200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr3:49396800-49413400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr3:49396800-49413400	Strong transcription	Thymus	Thymus
11	chr3:49396800-49413600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:49396800-49438800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr3:49397000-49412800	Strong transcription	Lung	lung
14	chr3:49397000-49413000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:49397000-49413200	Strong transcription	Adipose Nuclei	Adipose
16	chr3:49397000-49415200	Strong transcription	Fetal Stomach	stomach
17	chr3:49397200-49413400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:49397200-49423800	Weak transcription	Fetal Heart	heart
19	chr3:49397400-49413200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:49397400-49413200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:49397400-49413400	Strong transcription	Fetal Intestine Large	intestine
22	chr3:49397400-49413400	Strong transcription	Fetal Muscle Leg	muscle
23	chr3:49397400-49413400	Strong transcription	Placenta	Placenta
24	chr3:49397400-49416400	Strong transcription	Fetal Intestine Small	intestine
25	chr3:49397600-49413200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr3:49397600-49413200	Strong transcription	Spleen	Spleen
27	chr3:49397600-49413600	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr3:49397800-49413200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr3:49397800-49413600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr3:49397800-49413800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr3:49397800-49415800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:49399000-49448000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:49400600-49413200	Strong transcription	Primary T cells from cord blood	blood
34	chr3:49400800-49413600	Strong transcription	Fetal Thymus	thymus
35	chr3:49401200-49413200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr3:49401200-49413200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr3:49401400-49413800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:49401600-49413400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:49401600-49413400	Strong transcription	Dnd41	blood
40	chr3:49401600-49413600	Strong transcription	Osteobl	bone
41	chr3:49401600-49415200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr3:49402400-49413200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:49402800-49413200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr3:49402800-49413200	Strong transcription	Duodenum Mucosa	Duodenum
45	chr3:49403400-49412800	Strong transcription	Placenta Amnion	Placenta Amnion
46	chr3:49403400-49413000	Strong transcription	Brain Anterior Caudate	brain
47	chr3:49403400-49413200	Strong transcription	GM12878-XiMat	blood
48	chr3:49404400-49412800	Weak transcription	Brain Substantia Nigra	brain
49	chr3:49404400-49413200	Strong transcription	Sigmoid Colon	Sigmoid Colon
50	chr3:49406000-49411800	Weak transcription	Pancreas	Pancrea

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