Variant report

Variant	rs7618024
Chromosome Location	chr3:56728954-56728955
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:56708568..56710932-chr3:56727678..56729297,2	MCF-7	breast:
2	chr3:56715572..56717883-chr3:56727378..56729582,3	MCF-7	breast:
3	chr3:56716408..56719347-chr3:56726422..56729753,3	K562	blood:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1045926	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10865999	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10866000	0.88[ASN][1000 genomes]
rs11130536	0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.84[ASN][1000 genomes]
rs11130538	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11706624	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11712256	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11712278	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11715395	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11719656	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11921326	0.84[ASN][1000 genomes]
rs12488218	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12490749	0.84[ASN][1000 genomes]
rs12493637	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13094666	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13097030	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs13097288	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1491166	0.91[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap]
rs1565374	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1602190	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17056878	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs17216740	0.86[ASN][1000 genomes]
rs2004199	0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.81[ASN][1000 genomes]
rs2029464	0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.84[ASN][1000 genomes]
rs2029465	0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2054987	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2054988	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2291499	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2291501	0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.81[ASN][1000 genomes]
rs2317133	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2317245	0.84[ASN][1000 genomes]
rs35998149	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3732512	0.84[ASN][1000 genomes]
rs3772219	0.89[GIH][hapmap]
rs4681746	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4681794	0.89[GIH][hapmap]
rs4681951	0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap]
rs4681963	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6445807	0.81[EUR][1000 genomes]
rs66529035	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6774323	0.84[ASN][1000 genomes]
rs6802051	0.84[ASN][1000 genomes]
rs7432897	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7612599	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7629559	0.81[ASN][1000 genomes]
rs9811046	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9820759	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9822876	0.83[CHD][hapmap]
rs9827472	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9840528	0.88[ASN][1000 genomes]
rs9841915	0.86[ASN][1000 genomes]
rs9842283	0.90[CHB][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap]
rs9845096	0.86[ASN][1000 genomes]
rs9845655	0.86[ASN][1000 genomes]
rs9858728	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9862490	0.88[ASW][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap]
rs9881005	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9881154	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7618024	ARHGEF3	cis	cerebellum	SCAN
rs7618024	CCDC66	cis	cerebellum	SCAN
rs7618024	ERC2	cis	cerebellum	SCAN

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56725800-56734000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:56726000-56734000	Weak transcription	NHEK	skin
3	chr3:56726200-56729200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:56726400-56729800	Enhancers	Fetal Thymus	thymus
5	chr3:56726600-56729600	Enhancers	Primary B cells from peripheral blood	blood
6	chr3:56726600-56730000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr3:56726800-56729600	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr3:56726800-56729600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:56727000-56729600	Enhancers	Primary hematopoietic stem cells	blood
10	chr3:56727200-56729600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr3:56727200-56729800	Enhancers	Thymus	Thymus
12	chr3:56727200-56730000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr3:56727600-56729600	Enhancers	Primary B cells from cord blood	blood
14	chr3:56727600-56729600	Enhancers	GM12878-XiMat	blood
15	chr3:56727600-56729800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr3:56727600-56730000	Enhancers	Primary T cells fromperipheralblood	blood
17	chr3:56727600-56730400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:56727600-56731000	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr3:56727600-56731200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr3:56727600-56731200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:56727800-56729400	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:56727800-56731000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:56727800-56731200	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr3:56728000-56730400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr3:56728000-56733000	Weak transcription	Placenta	Placenta
26	chr3:56728200-56729800	Enhancers	Dnd41	blood
27	chr3:56728200-56730000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr3:56728200-56730000	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr3:56728200-56731000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr3:56728600-56729200	Flanking Active TSS	Primary T cells from cord blood	blood
31	chr3:56728800-56729200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

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