Variant report

Variant	rs7624215
Chromosome Location	chr3:88264569-88264570
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs1006895	1.00[JPT][hapmap]
rs1006896	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs1051413	0.85[JPT][hapmap]
rs1051436	1.00[JPT][hapmap]
rs1063597	1.00[JPT][hapmap]
rs1063603	1.00[JPT][hapmap]
rs11925988	0.96[EUR][1000 genomes]
rs13063511	1.00[JPT][hapmap]
rs13074910	1.00[CEU][hapmap]
rs13076170	1.00[JPT][hapmap]
rs13098157	1.00[JPT][hapmap]
rs13317202	0.96[EUR][1000 genomes]
rs1431154	0.80[YRI][hapmap]
rs2116149	1.00[JPT][hapmap]
rs2735556	1.00[CEU][hapmap]
rs2735559	1.00[CEU][hapmap]
rs3732776	1.00[JPT][hapmap]
rs3890707	1.00[JPT][hapmap]
rs4303891	0.90[ASW][hapmap];0.85[YRI][hapmap]
rs4337654	1.00[JPT][hapmap]
rs4368523	1.00[JPT][hapmap]
rs4384978	1.00[JPT][hapmap]
rs4414876	1.00[JPT][hapmap]
rs4429658	1.00[JPT][hapmap]
rs4432672	1.00[JPT][hapmap]
rs4443201	0.90[YRI][hapmap]
rs4485742	1.00[JPT][hapmap]
rs4507280	1.00[JPT][hapmap]
rs4518156	1.00[JPT][hapmap]
rs4596173	1.00[JPT][hapmap]
rs4611846	1.00[JPT][hapmap]
rs4858931	1.00[JPT][hapmap]
rs4858933	1.00[ASW][hapmap];0.96[LWK][hapmap];0.93[MKK][hapmap];0.90[YRI][hapmap]
rs4858934	0.88[EUR][1000 genomes]
rs4858939	0.97[EUR][1000 genomes]
rs4858940	0.96[EUR][1000 genomes]
rs4858981	1.00[JPT][hapmap]
rs4858983	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs4858985	1.00[JPT][hapmap]
rs4858994	1.00[JPT][hapmap]
rs4858998	0.82[JPT][hapmap]
rs4858999	1.00[JPT][hapmap]
rs4859003	0.99[EUR][1000 genomes]
rs55928667	0.86[EUR][1000 genomes]
rs55932154	0.88[EUR][1000 genomes]
rs56185750	0.88[EUR][1000 genomes]
rs56211058	0.88[EUR][1000 genomes]
rs56246133	0.82[EUR][1000 genomes]
rs6419868	0.99[EUR][1000 genomes]
rs6419869	0.96[EUR][1000 genomes]
rs6551270	0.95[YRI][hapmap]
rs6551271	1.00[JPT][hapmap]
rs6551272	1.00[JPT][hapmap]
rs6551275	1.00[JPT][hapmap]
rs6551276	0.91[EUR][1000 genomes]
rs6551277	1.00[JPT][hapmap]
rs6551278	1.00[JPT][hapmap]
rs6551281	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6551287	0.93[EUR][1000 genomes]
rs6551289	1.00[JPT][hapmap]
rs6551295	0.97[EUR][1000 genomes]
rs6777019	1.00[JPT][hapmap]
rs6781333	1.00[JPT][hapmap]
rs6787824	1.00[JPT][hapmap]
rs6792208	1.00[JPT][hapmap]
rs73132512	0.88[EUR][1000 genomes]
rs73132546	0.88[EUR][1000 genomes]
rs7429120	1.00[JPT][hapmap]
rs7430022	0.96[EUR][1000 genomes]
rs7431968	1.00[CEU][hapmap]
rs7432751	0.85[AFR][1000 genomes]
rs7432826	0.91[EUR][1000 genomes]
rs7610494	0.99[EUR][1000 genomes]
rs7617691	1.00[JPT][hapmap]
rs7618472	1.00[JPT][hapmap]
rs7620576	0.95[EUR][1000 genomes]
rs7621357	1.00[ASW][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];0.95[YRI][hapmap]
rs7632965	0.85[AFR][1000 genomes]
rs7633486	0.95[AFR][1000 genomes]
rs7636845	0.90[YRI][hapmap]
rs7650068	0.96[EUR][1000 genomes]
rs7651999	1.00[JPT][hapmap]
rs7653652	0.85[JPT][hapmap]
rs9284814	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9310066	1.00[JPT][hapmap]
rs9310067	1.00[JPT][hapmap]
rs9310072	1.00[JPT][hapmap]
rs9310073	1.00[ASW][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];0.90[YRI][hapmap]
rs9310074	1.00[JPT][hapmap]
rs9310077	1.00[JPT][hapmap]
rs959049	1.00[JPT][hapmap]
rs959050	1.00[JPT][hapmap]
rs9813894	1.00[JPT][hapmap]
rs9814057	1.00[JPT][hapmap]
rs9826925	1.00[CEU][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs9834501	1.00[JPT][hapmap]
rs9845776	1.00[JPT][hapmap]
rs9865335	1.00[JPT][hapmap]
rs9865578	0.80[CEU][hapmap];1.00[JPT][hapmap]
rs9865703	1.00[JPT][hapmap]
rs9865710	1.00[JPT][hapmap]
rs9881255	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916330	chr3:88083580-88884125	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1013031	chr3:88256289-88347505	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7624215	ZNF654	cis	lymphoblastoid	seeQTL
rs7624215	CGGBP1///LOC728397	Cis_1M	lymphoblastoid	RTeQTL
rs7624215	CXCR4	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:88253400-88278200	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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