Variant report

Variant	rs6773518
Chromosome Location	chr3:49443372-49443373
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:49441534..49443566-chr3:49445020..49447765,2	K562	blood:
2	chr3:49441705..49446563-chr3:49447849..49450189,5	MCF-7	breast:
3	chr3:49443013..49445153-chr3:49447014..49449649,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067560	Chromatin interaction
ENSG00000145022	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10865955	0.88[EUR][1000 genomes]
rs11130192	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11130193	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11130194	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11130196	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11130199	0.84[EUR][1000 genomes]
rs11130202	0.81[EUR][1000 genomes]
rs12488065	0.82[EUR][1000 genomes]
rs12489092	0.83[EUR][1000 genomes]
rs13096760	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1464566	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1464567	0.98[EUR][1000 genomes]
rs1464568	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1568661	0.84[EUR][1000 genomes]
rs1568662	0.83[EUR][1000 genomes]
rs17595772	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17650792	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2117939	0.93[EUR][1000 genomes]
rs2312461	0.81[EUR][1000 genomes]
rs2878298	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34937635	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35701831	0.84[EUR][1000 genomes]
rs3870337	0.83[EUR][1000 genomes]
rs3870338	0.83[EUR][1000 genomes]
rs3877784	0.84[EUR][1000 genomes]
rs3924462	0.84[EUR][1000 genomes]
rs3924463	0.82[EUR][1000 genomes]
rs4241408	0.81[EUR][1000 genomes]
rs4459909	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4563439	0.87[EUR][1000 genomes]
rs4855839	0.82[EUR][1000 genomes]
rs4855842	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4855843	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4855859	0.84[EUR][1000 genomes]
rs4855861	0.82[EUR][1000 genomes]
rs4855864	0.84[EUR][1000 genomes]
rs4855866	0.88[EUR][1000 genomes]
rs4855873	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4855877	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4955412	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4955438	0.83[EUR][1000 genomes]
rs55957735	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs59152804	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62259939	0.93[EUR][1000 genomes]
rs62259942	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62261185	0.80[EUR][1000 genomes]
rs6446274	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6784820	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6792911	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6797765	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7371895	0.82[EUR][1000 genomes]
rs7373849	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7621003	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7631908	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7637999	0.84[EUR][1000 genomes]
rs7643586	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7643845	0.83[EUR][1000 genomes]
rs7645445	0.86[EUR][1000 genomes]
rs885592	0.87[EUR][1000 genomes]

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs6773518	WDR6	cis	lung	GTEx
rs6773518	WDR6	cis	Skin Sun Exposed Lower leg	GTEx
rs6773518	WDR6	cis	Muscle Skeletal	GTEx
rs6773518	AMT	cis	Thyroid	GTEx
rs6773518	WDR6	cis	Adipose Subcutaneous	GTEx
rs6773518	RBM6	Cis_1M	lymphoblastoid	RTeQTL
rs6773518	WDR6	cis	Nerve Tibial	GTEx
rs6773518	WDR6	cis	Artery Tibial	GTEx
rs6773518	WDR6	cis	Whole Blood	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49399000-49448000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:49406000-49445200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:49413200-49447400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:49424200-49443400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:49426000-49444000	Weak transcription	Esophagus	oesophagus
6	chr3:49427000-49448400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:49429000-49447200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:49431200-49447200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:49433800-49444000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr3:49433800-49447200	Weak transcription	Colonic Mucosa	Colon
11	chr3:49435400-49445600	Weak transcription	Fetal Brain Male	brain
12	chr3:49435400-49447000	Weak transcription	HSMMtube	muscle
13	chr3:49435400-49447800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:49435800-49446800	Weak transcription	Brain Angular Gyrus	brain
15	chr3:49438200-49443800	Weak transcription	K562	blood
16	chr3:49438200-49444000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr3:49438200-49446800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:49438800-49444000	Weak transcription	Right Ventricle	heart
19	chr3:49439000-49447200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr3:49439200-49443600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:49439400-49443400	Weak transcription	Brain Hippocampus Middle	brain
22	chr3:49439400-49444200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr3:49439600-49443600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr3:49439600-49443600	Weak transcription	HepG2	liver
25	chr3:49439600-49444600	Weak transcription	Fetal Heart	heart
26	chr3:49439600-49447200	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:49439800-49444200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr3:49439800-49447000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr3:49440200-49443600	Weak transcription	Primary T cells from cord blood	blood
30	chr3:49440200-49447000	Weak transcription	Fetal Lung	lung
31	chr3:49441400-49447000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr3:49441400-49447000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr3:49441400-49447200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr3:49441600-49443800	Weak transcription	Spleen	Spleen
35	chr3:49441600-49443800	Weak transcription	HMEC	breast
36	chr3:49441600-49443800	Weak transcription	HUVEC	blood vessel
37	chr3:49441600-49446000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr3:49441600-49447000	Weak transcription	Fetal Brain Female	brain
39	chr3:49441600-49447200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:49441600-49447600	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr3:49441800-49443800	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr3:49441800-49444000	Weak transcription	Pancreas	Pancrea
43	chr3:49441800-49444000	Weak transcription	Psoas Muscle	Psoas
44	chr3:49441800-49444000	Weak transcription	Thymus	Thymus
45	chr3:49441800-49444800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:49441800-49445000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr3:49441800-49445200	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr3:49441800-49447000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:49441800-49447200	Weak transcription	Fetal Intestine Large	intestine
50	chr3:49442000-49443800	Weak transcription	Fetal Stomach	stomach

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