Variant report

Variant	rs6786665
Chromosome Location	chr3:48996606-48996607
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 24 )

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10780033	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11130176	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1134591	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11705737	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11705888	0.85[EUR][1000 genomes]
rs11708022	0.85[ASN][1000 genomes]
rs11709246	0.95[ASN][1000 genomes]
rs11712982	0.92[ASN][1000 genomes]
rs11713694	0.87[ASN][1000 genomes]
rs11717978	0.95[ASN][1000 genomes]
rs11719457	0.95[ASN][1000 genomes]
rs11920534	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11924597	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12491743	0.85[EUR][1000 genomes]
rs12493289	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12637037	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13064784	0.83[EUR][1000 genomes]
rs13064883	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13064911	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13072911	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13073997	0.90[ASN][1000 genomes]
rs13076394	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13078308	0.86[EUR][1000 genomes]
rs13086240	0.92[ASN][1000 genomes]
rs13087930	0.95[ASN][1000 genomes]
rs13090839	0.92[ASN][1000 genomes]
rs13094900	0.87[ASN][1000 genomes]
rs13315711	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13316620	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28642807	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34477108	0.95[ASN][1000 genomes]
rs34504524	0.87[ASN][1000 genomes]
rs34509487	0.95[ASN][1000 genomes]
rs3774628	0.83[EUR][1000 genomes]
rs4072859	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4974078	0.93[ASN][1000 genomes]
rs4974079	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4974080	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4974082	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4974084	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4974085	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974087	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974091	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55674449	0.88[ASN][1000 genomes]
rs56318350	0.95[ASN][1000 genomes]
rs6414613	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6442130	0.81[EUR][1000 genomes]
rs6446196	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6446198	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6446205	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6446252	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6446253	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67060340	0.90[ASN][1000 genomes]
rs67332931	0.95[ASN][1000 genomes]
rs6768433	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6781790	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6789285	0.93[EUR][1000 genomes]
rs6791234	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6795025	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71324924	0.95[ASN][1000 genomes]
rs7372149	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7373778	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7373790	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7430198	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7430501	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7431710	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7431857	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7432989	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7612459	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7615235	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7615675	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7616815	0.81[EUR][1000 genomes]
rs7621015	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7623023	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7626445	0.89[EUR][1000 genomes]
rs7627404	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7628719	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636057	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7639332	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7643368	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647093	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7649458	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8926	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9311430	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9311432	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9311433	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9311434	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9681717	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9682444	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9754878	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9755490	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9830636	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9835307	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9840050	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9840684	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9846123	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9850134	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9867373	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9876848	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9879971	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9884022	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:24)

SNP	Gene	Cis/trans	Tissue	Source
rs6786665	WDR6	cis	Skin Sun Exposed Lower leg	GTEx
rs6786665	ARIH2	cis	Thyroid	GTEx
rs6786665	WDR6	cis	Heart Left Ventricle	GTEx
rs6786665	NCKIPSD	cis	Muscle Skeletal	GTEx
rs6786665	WDR6	cis	lung	GTEx
rs6786665	WDR6	cis	Muscle Skeletal	GTEx
rs6786665	WDR6	cis	Whole Blood	GTEx
rs6786665	NCKIPSD	cis	Nerve Tibial	GTEx
rs6786665	CCDC36	cis	Esophagus Muscularis	GTEx
rs6786665	ARIH2	Cis_1M	lymphoblastoid	RTeQTL
rs6786665	WDR6	cis	Artery Tibial	GTEx
rs6786665	WDR6	cis	Nerve Tibial	GTEx
rs6786665	NCKIPSD	cis	Esophagus Muscularis	GTEx
rs6786665	PH-4	Cis_1M	lymphoblastoid	RTeQTL
rs6786665	NICN1-AS1	cis	Thyroid	GTEx
rs6786665	NCKIPSD	cis	Whole Blood	GTEx
rs6786665	AMT	cis	Muscle Skeletal	GTEx
rs6786665	WDR6	cis	Stomach	GTEx
rs6786665	CCDC36	cis	Artery Tibial	GTEx
rs6786665	WDR6	cis	Esophagus Muscularis	GTEx
rs6786665	WDR6	cis	Esophagus Mucosa	GTEx
rs6786665	NICN1	cis	Thyroid	GTEx
rs6786665	WDR6	cis	Adipose Subcutaneous	GTEx
rs6786665	AMT	cis	Thyroid	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:48957400-49003800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:48962000-49000400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:48965200-49004200	Weak transcription	Colonic Mucosa	Colon
4	chr3:48965400-49000000	Weak transcription	Esophagus	oesophagus
5	chr3:48965800-49000000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr3:48965800-49004000	Weak transcription	Fetal Brain Male	brain
7	chr3:48966000-49008000	Weak transcription	Fetal Kidney	kidney
8	chr3:48968000-48997200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:48968200-48997200	Weak transcription	NHDF-Ad	bronchial
10	chr3:48970400-49004400	Weak transcription	Pancreas	Pancrea
11	chr3:48970800-49002000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr3:48972000-49000400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:48973600-48997600	Weak transcription	Osteobl	bone
14	chr3:48975000-48999800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr3:48979000-49007600	Weak transcription	Stomach Mucosa	stomach
16	chr3:48981400-49002200	Weak transcription	A549	lung
17	chr3:48982800-48999600	Weak transcription	Rectal Smooth Muscle	rectum
18	chr3:48982800-49002800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr3:48984600-48998400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:48986600-49004400	Weak transcription	NHLF	lung
21	chr3:48987000-48997200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr3:48987000-48997400	Weak transcription	Psoas Muscle	Psoas
23	chr3:48987000-49004000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:48987000-49004200	Weak transcription	Aorta	Aorta
25	chr3:48987200-49000000	Weak transcription	NH-A	brain
26	chr3:48987200-49002200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr3:48987200-49002200	Weak transcription	HMEC	breast
28	chr3:48988000-49000200	Weak transcription	Fetal Heart	heart
29	chr3:48988000-49011600	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr3:48989800-49003000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr3:48989800-49023600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:48990000-49024600	Strong transcription	Fetal Thymus	thymus
33	chr3:48990200-48997200	Weak transcription	Brain Cingulate Gyrus	brain
34	chr3:48990200-49004000	Weak transcription	Small Intestine	intestine
35	chr3:48990200-49004400	Weak transcription	Brain Angular Gyrus	brain
36	chr3:48990200-49010000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:48990400-48998200	Weak transcription	GM12878-XiMat	blood
38	chr3:48990800-49000600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr3:48991000-48997600	Strong transcription	Fetal Muscle Leg	muscle
40	chr3:48991200-48997600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr3:48991800-48999400	Weak transcription	Right Ventricle	heart
42	chr3:48991800-49000600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:48992000-48999200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr3:48992200-48997200	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr3:48992200-48998200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr3:48992200-49000000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:48992200-49003600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr3:48993000-48999800	Weak transcription	Brain Hippocampus Middle	brain
49	chr3:48993200-48997200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr3:48994000-48997400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

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