Variant report

Variant	rs4773689
Chromosome Location	chr13:93201002-93201003
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:93193686..93196509-chr13:93200416..93203528,3	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1180898	0.94[ASW][hapmap];0.96[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1180900	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[GIH][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1180903	0.88[EUR][1000 genomes]
rs1333675	1.00[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.83[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs1333676	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1333677	0.89[ASW][hapmap];0.88[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap]
rs1629541	0.96[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2149059	0.92[CEU][hapmap];0.88[CHB][hapmap];0.80[CHD][hapmap];0.95[GIH][hapmap];0.94[TSI][hapmap];0.86[EUR][1000 genomes]
rs2149060	0.92[CEU][hapmap];0.94[CHB][hapmap];0.88[YRI][hapmap]
rs2149061	0.88[CEU][hapmap];0.94[CHB][hapmap]
rs2209832	0.92[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2769298	0.86[EUR][1000 genomes]
rs2769299	0.92[CEU][hapmap];0.88[CHB][hapmap]
rs2780742	0.96[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap]
rs2780743	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs364383	0.96[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap]
rs373049	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4144426	0.92[CEU][hapmap];0.94[CHB][hapmap]
rs4384477	0.96[CEU][hapmap];0.94[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs6492611	0.82[CHB][hapmap]
rs7318268	0.86[CEU][hapmap];0.93[CHB][hapmap];1.00[YRI][hapmap]
rs7319531	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7329646	0.96[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs7350692	0.86[EUR][1000 genomes]
rs7981855	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap]
rs7983525	0.93[CHB][hapmap]
rs7992204	0.96[CEU][hapmap];0.94[CHB][hapmap];0.96[YRI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7993864	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9516087	0.96[CEU][hapmap];1.00[YRI][hapmap]
rs9516088	0.96[CEU][hapmap];0.93[CHB][hapmap];0.93[YRI][hapmap]
rs9516089	0.88[ASW][hapmap];0.88[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs9516091	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs9523689	1.00[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9523690	0.96[CEU][hapmap];0.94[CHB][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9523691	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9523692	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[YRI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9523693	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9523701	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9556184	0.85[EUR][1000 genomes]
rs9556188	0.96[CEU][hapmap];0.94[CHB][hapmap];0.96[YRI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9561068	0.92[CEU][hapmap];0.94[CHB][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.82[YRI][hapmap]
rs9561069	0.88[CEU][hapmap];0.94[CHB][hapmap]
rs9561073	1.00[ASW][hapmap];0.92[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.96[YRI][hapmap];0.85[EUR][1000 genomes]
rs9561074	0.85[EUR][1000 genomes]
rs9561075	0.96[CEU][hapmap];0.94[CHB][hapmap];0.89[YRI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9561076	0.96[CEU][hapmap];0.94[CHB][hapmap];0.92[EUR][1000 genomes]
rs9561077	0.96[CEU][hapmap];0.94[CHB][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9561078	0.92[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes]
rs9584032	0.92[CEU][hapmap];0.94[CHB][hapmap];0.85[EUR][1000 genomes]
rs974419	0.92[CEU][hapmap];0.94[CHB][hapmap];0.96[YRI][hapmap];0.84[EUR][1000 genomes]
rs993485	0.88[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.94[TSI][hapmap];0.86[YRI][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471168	chr13:93138577-93208593	Enhancers Weak transcription Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
2	nsv900904	chr13:93138577-93208593	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
3	nsv900905	chr13:93138577-93211339	Enhancers Weak transcription Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
4	nsv562728	chr13:93142706-93208593	Weak transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv456069	chr13:93161846-93204427	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv562729	chr13:93161846-93204427	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv818987	chr13:93201002-93208593	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4773689	GPC5	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:93201000-93202400	Enhancers	Fetal Intestine Small	intestine
2	chr13:93201000-93203000	Enhancers	Fetal Intestine Large	intestine

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