Variant report

Variant	rs4535211
Chromosome Location	chr3:17072997-17072998
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:17067604..17070878-chr3:17071956..17074432,3	K562	blood:
2	chr3:17061938..17064281-chr3:17072645..17075363,2	K562	blood:
3	chr3:17070807..17073673-chr3:17074313..17077008,2	K562	blood:

Extended variants
information (count: 75 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10865746	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11128815	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11717329	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11926952	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12233492	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12487288	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12497667	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12497953	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13058764	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13059347	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13071645	0.84[CEU][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13080108	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13080782	0.82[EUR][1000 genomes]
rs13317381	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1441035	0.87[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17272796	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1806555	0.83[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.83[EUR][1000 genomes]
rs1806556	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1837697	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2014490	0.86[JPT][hapmap]
rs35319117	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3906814	0.82[CEU][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3924971	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4234539	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4295151	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4334629	0.93[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[TSI][hapmap]
rs4353792	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4423750	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4461404	0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4472039	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4561816	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4596131	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4602367	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4618210	0.85[JPT][hapmap]
rs4684308	0.81[JPT][hapmap]
rs4685404	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4685405	0.86[JPT][hapmap]
rs4685408	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4685409	0.81[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.96[MEX][hapmap];0.95[MKK][hapmap];0.98[TSI][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4685415	0.86[AMR][1000 genomes]
rs4685418	0.83[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4685420	0.96[CEU][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4685421	0.96[CEU][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4685422	1.00[YRI][hapmap]
rs4685426	0.90[JPT][hapmap]
rs4685427	0.85[JPT][hapmap]
rs55748719	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6442660	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs6762816	0.96[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6776032	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6780191	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6781611	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6797029	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805534	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6807144	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6809087	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[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]
rs7610811	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7611127	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7612044	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7617672	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7629171	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7645335	0.85[CEU][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7653027	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9810017	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9824172	0.86[JPT][hapmap]
rs9830460	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9841259	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9844888	0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs9854760	0.80[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9862613	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9879150	0.95[JPT][hapmap]
rs9880307	0.91[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9881521	0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9883633	0.89[JPT][hapmap]
rs9985404	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4535211	CHCHD4	cis	parietal	SCAN
rs4535211	PLCL2	cis	Whole Blood	GTEx

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17051600-17075000	Weak transcription	Fetal Brain Male	brain
2	chr3:17053600-17076200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr3:17053600-17080600	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:17053800-17086800	Weak transcription	Fetal Stomach	stomach
5	chr3:17055000-17077000	Weak transcription	Fetal Brain Female	brain
6	chr3:17055400-17074200	Weak transcription	Brain Anterior Caudate	brain
7	chr3:17055400-17088800	Weak transcription	Thymus	Thymus
8	chr3:17055600-17079800	Weak transcription	Small Intestine	intestine
9	chr3:17055800-17087800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:17057400-17076200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr3:17057600-17080600	Weak transcription	Duodenum Mucosa	Duodenum
12	chr3:17058200-17074000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr3:17058600-17077000	Weak transcription	Right Ventricle	heart
14	chr3:17058600-17082400	Weak transcription	Fetal Intestine Large	intestine
15	chr3:17059800-17073000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr3:17060000-17074600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:17060000-17082200	Weak transcription	Fetal Intestine Small	intestine
18	chr3:17060000-17088600	Weak transcription	Pancreas	Pancrea
19	chr3:17060200-17081000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr3:17061800-17073200	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr3:17065600-17081200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:17066600-17075600	Weak transcription	Left Ventricle	heart
23	chr3:17069000-17073200	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr3:17069400-17085600	Weak transcription	Aorta	Aorta
25	chr3:17069600-17080800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:17069800-17073000	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr3:17069800-17073200	Weak transcription	Fetal Kidney	kidney
28	chr3:17070000-17093600	Weak transcription	Fetal Lung	lung
29	chr3:17070200-17073200	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr3:17070200-17073200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr3:17070800-17073000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:17070800-17073000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr3:17070800-17073000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr3:17070800-17073200	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr3:17071000-17073200	Strong transcription	Placenta	Placenta
36	chr3:17071000-17074400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:17071200-17073000	Enhancers	Stomach Mucosa	stomach
38	chr3:17071400-17073400	Enhancers	Primary T cells from cord blood	blood
39	chr3:17071400-17074200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:17071400-17075000	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr3:17071400-17079800	Weak transcription	Lung	lung
42	chr3:17071400-17080600	Weak transcription	Gastric	stomach
43	chr3:17071600-17073000	Enhancers	Fetal Heart	heart
44	chr3:17071600-17075600	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr3:17071800-17080600	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr3:17072000-17073000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr3:17072000-17073200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr3:17072000-17073200	Enhancers	Primary neutrophils fromperipheralblood	blood
49	chr3:17072000-17073200	Enhancers	GM12878-XiMat	blood
50	chr3:17072200-17079800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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