Variant report

Variant	rs3734652
Chromosome Location	chr6:109786980-109786981
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 12 )

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

rs_ID	r²[population]
rs10457192	0.88[CEU][hapmap];0.87[GIH][hapmap];0.85[JPT][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs10457194	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs10457195	0.88[CEU][hapmap]
rs1046943	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1054607	0.95[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.91[MKK][hapmap];0.90[YRI][hapmap];0.92[ASN][1000 genomes]
rs1074765	0.93[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes]
rs1074766	0.93[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[MEX][hapmap];0.80[MKK][hapmap];0.84[TSI][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes]
rs10872033	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11153183	0.88[CEU][hapmap];0.87[GIH][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs11251	0.96[CEU][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs11754455	0.87[CEU][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes]
rs11755641	0.88[CEU][hapmap];0.87[GIH][hapmap];0.91[TSI][hapmap]
rs12194061	0.87[CEU][hapmap]
rs12197180	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs12198938	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs12199154	0.88[CEU][hapmap];0.87[GIH][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs12212476	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs12214147	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12529733	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs13201430	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs13203587	0.83[EUR][1000 genomes]
rs13219952	0.86[EUR][1000 genomes]
rs13220915	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs1406899	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs1476387	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.95[MEX][hapmap];0.90[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1476388	0.81[EUR][1000 genomes]
rs1521907	0.86[EUR][1000 genomes]
rs17070591	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17070656	0.85[YRI][hapmap]
rs1885690	0.86[EUR][1000 genomes]
rs1885691	0.88[EUR][1000 genomes]
rs1980591	0.87[CEU][hapmap]
rs1998811	0.87[EUR][1000 genomes]
rs2024849	0.83[EUR][1000 genomes]
rs2024850	0.88[CEU][hapmap];0.85[GIH][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs2024852	0.83[EUR][1000 genomes]
rs2024853	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs2076929	0.88[YRI][hapmap]
rs2211288	0.88[EUR][1000 genomes]
rs2236084	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];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2277113	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2277114	0.88[CEU][hapmap];0.87[GIH][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs2884037	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs35146243	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35260632	0.88[AMR][1000 genomes]
rs3757230	0.87[EUR][1000 genomes]
rs3757231	0.88[EUR][1000 genomes]
rs3757235	0.85[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs3778474	0.96[CEU][hapmap];0.82[JPT][hapmap];0.86[EUR][1000 genomes]
rs3778478	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3799842	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];0.95[TSI][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3818933	0.87[EUR][1000 genomes]
rs3899233	0.88[CEU][hapmap];0.87[GIH][hapmap];0.91[TSI][hapmap]
rs4636056	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4945831	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4946967	0.96[CEU][hapmap];0.82[CHB][hapmap];0.86[EUR][1000 genomes]
rs4946970	0.88[EUR][1000 genomes]
rs4946976	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58644322	0.86[EUR][1000 genomes]
rs59597139	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6568587	0.85[YRI][hapmap]
rs6911838	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs6914216	0.86[EUR][1000 genomes]
rs6920372	1.00[CEU][hapmap];0.95[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6920712	0.95[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.80[LWK][hapmap];0.95[MKK][hapmap];0.90[YRI][hapmap];0.92[ASN][1000 genomes]
rs6920962	0.81[YRI][hapmap]
rs6925005	0.85[YRI][hapmap]
rs6939548	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6939953	0.86[EUR][1000 genomes]
rs699700	0.86[EUR][1000 genomes]
rs729888	0.88[CEU][hapmap];0.85[GIH][hapmap];0.91[TSI][hapmap]
rs730089	0.85[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs7356790	0.85[YRI][hapmap]
rs736830	0.85[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[MEX][hapmap];0.80[MKK][hapmap];0.86[TSI][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs746794	0.88[EUR][1000 genomes]
rs7748669	0.96[CEU][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap];0.90[EUR][1000 genomes]
rs7751582	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7754650	0.96[CEU][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs7755941	0.87[CEU][hapmap];0.83[GIH][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes]
rs7768973	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7773950	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs8465	0.87[EUR][1000 genomes]
rs910730	0.85[ASW][hapmap];0.96[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9320286	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9372213	0.81[CEU][hapmap];0.87[GIH][hapmap]
rs9398202	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9400284	0.87[ASN][1000 genomes]
rs9400287	0.83[ASN][1000 genomes]
rs9480947	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs9480949	0.87[EUR][1000 genomes]
rs9480956	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9480958	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9487064	0.81[EUR][1000 genomes]
rs9487069	0.86[EUR][1000 genomes]
rs9487070	1.00[CEU][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes]
rs9487076	0.87[EUR][1000 genomes]
rs9487084	0.88[EUR][1000 genomes]
rs9487085	0.86[EUR][1000 genomes]
rs9487103	0.93[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.87[MEX][hapmap];0.80[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs974034	0.93[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[MEX][hapmap];0.84[TSI][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes]
rs9791241	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:12)

SNP	Gene	Cis/trans	Tissue	Source
rs3734652	CD164	cis	parietal	SCAN
rs3734652	RP11-425D10.10	cis	Whole Blood	GTEx
rs3734652	MICAL1	cis	Artery Tibial	GTEx
rs3734652	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs3734652	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs3734652	SMPD2	cis	parietal	SCAN
rs3734652	AKD1	cis	cerebellum	SCAN
rs3734652	SMPD2	cis	Esophagus Mucosa	GTEx
rs3734652	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs3734652	FIG4	cis	cerebellum	SCAN
rs3734652	AKD1	cis	parietal	SCAN
rs3734652	FIG4	cis	parietal	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109778200-109787000	Weak transcription	Colon Smooth Muscle	Colon
2	chr6:109778400-109787000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:109778400-109791400	Weak transcription	Colonic Mucosa	Colon
4	chr6:109778800-109798800	Weak transcription	Small Intestine	intestine
5	chr6:109779000-109787000	Weak transcription	Esophagus	oesophagus
6	chr6:109779000-109787000	Weak transcription	Right Atrium	heart
7	chr6:109779000-109787000	Weak transcription	Right Ventricle	heart
8	chr6:109780600-109800400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr6:109781400-109802200	Strong transcription	HSMM	muscle
10	chr6:109782000-109798800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr6:109782000-109799000	Strong transcription	HUES48 Cell Line	embryonic stem cell
12	chr6:109782200-109788000	Strong transcription	Primary B cells from cord blood	blood
13	chr6:109782200-109792400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:109782400-109787000	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr6:109782400-109787000	Strong transcription	Skeletal Muscle Female	skeletal muscle
16	chr6:109782400-109789000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:109782400-109790600	Strong transcription	Fetal Thymus	thymus
18	chr6:109782400-109797600	Strong transcription	Dnd41	blood
19	chr6:109782400-109797800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:109782400-109798000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:109782400-109798200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:109782400-109798800	Strong transcription	H1 Cell Line	embryonic stem cell
23	chr6:109782400-109798800	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr6:109782400-109798800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:109782400-109798800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:109782400-109799000	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:109782400-109799000	Strong transcription	Placenta	Placenta
28	chr6:109782400-109799200	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr6:109782400-109799800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:109782400-109799800	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr6:109782400-109800000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:109782400-109803000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:109782600-109787200	Strong transcription	Fetal Intestine Large	intestine
34	chr6:109782600-109789200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:109782600-109797800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr6:109782600-109799600	Strong transcription	Fetal Muscle Trunk	muscle
37	chr6:109782600-109800000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr6:109782800-109792600	Strong transcription	Primary B cells from peripheral blood	blood
39	chr6:109783000-109788200	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:109783000-109789400	Strong transcription	NHDF-Ad	bronchial
41	chr6:109783000-109797800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr6:109783000-109798000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:109783000-109798200	Strong transcription	Adipose Nuclei	Adipose
44	chr6:109783200-109799800	Strong transcription	Cortex derived primary cultured neurospheres	brain
45	chr6:109783600-109799000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:109783800-109789000	Weak transcription	HSMMtube	muscle
47	chr6:109784600-109787000	Weak transcription	Lung	lung
48	chr6:109785000-109787400	Strong transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr6:109785000-109788200	Enhancers	Pancreatic Islets	Pancreatic Islet
50	chr6:109785000-109788800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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