Variant report

Variant	rs13098923
Chromosome Location	chr3:136803437-136803438
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136797820..136799474-chr3:136801055..136803637,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1023765	0.82[AMR][1000 genomes]
rs10935221	0.82[AMR][1000 genomes]
rs1351892	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1470143	0.82[AMR][1000 genomes]
rs1484787	0.82[AMR][1000 genomes]
rs1484794	0.83[AMR][1000 genomes]
rs3899122	0.83[AMR][1000 genomes]
rs4678286	0.83[AMR][1000 genomes]
rs6439683	0.84[AMR][1000 genomes]
rs6439685	0.84[AMR][1000 genomes]
rs6439686	0.84[AMR][1000 genomes]
rs6773448	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6781928	0.82[AMR][1000 genomes]
rs6795587	0.84[ASN][1000 genomes]
rs6806914	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807138	0.84[AMR][1000 genomes]
rs6808049	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6808051	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627723	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646139	0.82[AMR][1000 genomes]
rs9289525	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs969329	0.83[AMR][1000 genomes]
rs9810065	0.85[ASN][1000 genomes]
rs9818478	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9818918	0.82[AMR][1000 genomes]
rs9819250	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822931	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826507	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838513	0.82[AMR][1000 genomes]
rs9843104	0.84[AMR][1000 genomes]
rs9843219	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9845076	0.80[MEX][hapmap]
rs9856620	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9870582	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9874836	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882135	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv524856	chr3:136693459-137190765	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1012111	chr3:136695367-137343430	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs13098923	GRK7	cis	cerebellum	SCAN
rs13098923	SPSB4	cis	cerebellum	SCAN
rs13098923	TFDP2	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136782000-136804600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr3:136798400-136821200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:136803400-136803800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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