Variant report

Variant	rs9564597
Chromosome Location	chr13:70317072-70317073
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs11148828	0.89[JPT][hapmap]
rs11618330	0.89[JPT][hapmap]
rs11618357	0.80[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.81[TSI][hapmap]
rs11619836	0.80[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs12430131	0.89[JPT][hapmap]
rs12583014	0.89[JPT][hapmap]
rs12584317	0.80[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs12585046	0.87[ASN][1000 genomes]
rs1364377	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs1593176	0.89[JPT][hapmap]
rs17085396	0.89[JPT][hapmap]
rs17727950	0.80[JPT][hapmap]
rs17728004	0.80[CEU][hapmap];0.89[JPT][hapmap]
rs17728354	0.84[CEU][hapmap];0.89[JPT][hapmap]
rs17794771	0.80[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.81[TSI][hapmap];0.87[ASN][1000 genomes]
rs1890045	0.89[JPT][hapmap]
rs1895569	0.93[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap]
rs2059299	0.89[JPT][hapmap]
rs2152779	0.83[CHB][hapmap];0.84[JPT][hapmap]
rs2325234	0.89[CEU][hapmap];0.89[JPT][hapmap]
rs3909551	0.80[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap]
rs4304920	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs66985863	0.86[ASN][1000 genomes]
rs7986686	0.89[JPT][hapmap]
rs7987637	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs7987960	0.89[JPT][hapmap]
rs7988385	0.89[JPT][hapmap]
rs7989992	0.89[JPT][hapmap]
rs7990295	0.89[JPT][hapmap]
rs7991639	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs7992119	0.83[JPT][hapmap]
rs7999609	0.85[CHD][hapmap];0.89[JPT][hapmap]
rs8000091	0.89[JPT][hapmap]
rs9317839	1.00[CHB][hapmap]
rs9317840	0.87[CHB][hapmap];0.89[JPT][hapmap]
rs9317843	0.89[JPT][hapmap]
rs9317844	0.89[JPT][hapmap]
rs9317845	0.80[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs9529629	0.83[CHB][hapmap];0.83[CHD][hapmap]
rs9529646	0.84[JPT][hapmap]
rs9542057	0.83[CHD][hapmap]
rs9542068	0.94[CHB][hapmap]
rs9542074	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs9564595	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9564596	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.92[MEX][hapmap];0.94[TSI][hapmap]
rs9564601	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs9564604	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs9564607	0.80[CEU][hapmap];0.81[CHD][hapmap];0.89[JPT][hapmap]
rs9564608	0.87[CHB][hapmap];0.88[JPT][hapmap]
rs9564609	0.80[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap]
rs9564610	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs9564614	0.89[JPT][hapmap]
rs9564618	0.88[JPT][hapmap]
rs9564619	0.83[CHB][hapmap]
rs9564623	0.83[JPT][hapmap]
rs9572242	0.83[CHB][hapmap]
rs9572250	0.87[ASW][hapmap];0.80[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.80[LWK][hapmap]
rs9572253	0.93[CHB][hapmap]
rs9572262	0.80[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs9572268	0.85[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap]
rs9572269	0.86[ASN][1000 genomes]
rs9572272	0.88[JPT][hapmap]
rs9572273	0.82[CHB][hapmap]
rs9572284	0.89[JPT][hapmap]
rs9572285	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs9572286	0.89[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.81[TSI][hapmap]
rs9572287	0.89[JPT][hapmap]
rs9572288	0.85[JPT][hapmap]
rs9572289	0.89[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs9572291	0.84[JPT][hapmap]
rs9572294	0.89[JPT][hapmap]
rs9572295	0.86[JPT][hapmap]
rs9599508	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs9599509	0.80[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs993139	0.89[JPT][hapmap]
rs993141	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045844	chr13:70038096-70405435	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1049684	chr13:70126871-70333445	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv900481	chr13:70147851-70560731	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1054554	chr13:70159715-70502956	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv900482	chr13:70186605-70383876	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv1837120	chr13:70209507-70425056	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv482460	chr13:70240630-70419347	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv900483	chr13:70254555-70464234	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv900484	chr13:70298300-70383876	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv900485	chr13:70302991-70383876	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv900486	chr13:70302991-70421896	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9564597	GPR52	trans	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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