Variant report

Variant	rs4461404
Chromosome Location	chr3:17045363-17045364
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:17044092..17045719-chr3:17054139..17056797,2	K562	blood:
2	chr3:17039544..17041454-chr3:17044193..17046308,3	K562	blood:
3	chr3:17039629..17042564-chr3:17044949..17047142,2	MCF-7	breast:
4	chr3:17039544..17042742-chr3:17044193..17046929,5	K562	blood:

Extended variants
information (count: 78 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10865746	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11128815	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11717329	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11926952	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12108065	0.80[CHD][hapmap]
rs12233492	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12487288	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12497667	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12497953	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13058764	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13059347	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13071645	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13080108	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13080782	0.88[EUR][1000 genomes]
rs13317381	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1441035	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17272796	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[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]
rs1806555	1.00[CEU][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1806556	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1837697	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2014490	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs35319117	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3906814	0.95[CEU][hapmap];0.84[JPT][hapmap];0.91[YRI][hapmap];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3924971	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4234539	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4295151	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4334629	0.85[CEU][hapmap];0.83[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.80[MEX][hapmap];0.91[TSI][hapmap];0.80[YRI][hapmap]
rs4353792	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4423750	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4452313	0.96[YRI][hapmap]
rs4472039	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4535211	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]
rs4561816	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4596131	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4602367	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4618210	0.85[JPT][hapmap]
rs4684308	0.81[JPT][hapmap]
rs4685404	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4685405	0.86[JPT][hapmap]
rs4685408	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4685409	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4685415	0.83[AMR][1000 genomes]
rs4685418	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4685420	0.88[CEU][hapmap];0.86[YRI][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4685421	0.89[CEU][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4685426	0.90[JPT][hapmap]
rs4685427	0.85[JPT][hapmap]
rs55748719	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6442660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6762816	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6776032	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6780191	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6781611	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6797029	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6805534	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6807144	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6809087	0.85[CEU][hapmap];0.95[CHB][hapmap];0.98[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]
rs7610811	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7611127	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7612044	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7617672	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7629171	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7645335	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7648912	0.80[CHD][hapmap]
rs7653027	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7653834	0.80[CHD][hapmap]
rs9810017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9824172	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs9830460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9841259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9844888	0.82[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9854760	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9862613	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9879150	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs9880307	0.81[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9881521	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9883633	0.81[CHB][hapmap];0.89[JPT][hapmap]
rs9985404	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4461404	CHCHD4	cis	parietal	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17035000-17047200	Weak transcription	Ovary	ovary
2	chr3:17037000-17053200	Weak transcription	Fetal Intestine Small	intestine
3	chr3:17037600-17050800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr3:17038000-17047800	Weak transcription	Gastric	stomach
5	chr3:17040200-17051000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:17040200-17051200	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr3:17041200-17045400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:17041200-17051400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:17043200-17048400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:17043400-17046800	Weak transcription	Primary B cells from cord blood	blood
11	chr3:17043800-17048800	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr3:17044000-17048800	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr3:17044000-17050800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:17044200-17045800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:17044600-17048400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr3:17044600-17048400	Enhancers	Fetal Heart	heart
17	chr3:17044600-17049000	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr3:17044800-17045400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
19	chr3:17044800-17045400	Enhancers	Right Ventricle	heart
20	chr3:17044800-17045800	Enhancers	Primary B cells from peripheral blood	blood
21	chr3:17044800-17045800	Enhancers	GM12878-XiMat	blood
22	chr3:17044800-17046000	Enhancers	Primary T cells fromperipheralblood	blood
23	chr3:17044800-17046600	Enhancers	Left Ventricle	heart
24	chr3:17044800-17048400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
25	chr3:17044800-17048800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
26	chr3:17045000-17045400	Enhancers	Placenta	Placenta
27	chr3:17045000-17045400	Enhancers	Pancreas	Pancrea
28	chr3:17045000-17045800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr3:17045000-17046800	Enhancers	Psoas Muscle	Psoas
30	chr3:17045000-17048200	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr3:17045000-17048400	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr3:17045000-17053800	Weak transcription	Thymus	Thymus
33	chr3:17045200-17045600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:17045200-17046400	Weak transcription	Right Atrium	heart
35	chr3:17045200-17047600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr3:17045200-17047800	Weak transcription	Spleen	Spleen
37	chr3:17045200-17048200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr3:17045200-17048400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr3:17045200-17050000	Weak transcription	Lung	lung
40	chr3:17045200-17052200	Weak transcription	Aorta	Aorta

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