Variant report

Variant	rs10488936
Chromosome Location	chr4:82212170-82212171
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:82209550..82211788-chr4:82211978..82214225,2	K562	blood:

Extended variants
information (count: 81 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10006067	0.96[ASN][1000 genomes]
rs11722445	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11723613	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11725731	0.83[ASN][1000 genomes]
rs11732408	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11938641	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1377057	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1400746	0.83[ASN][1000 genomes]
rs1443541	0.90[ASN][1000 genomes]
rs1452365	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1452374	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1473160	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1517550	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1517554	0.91[ASN][1000 genomes]
rs1568201	0.84[ASN][1000 genomes]
rs1662837	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1662838	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1662839	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1662840	0.85[ASN][1000 genomes]
rs1662842	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1662843	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1662844	0.84[ASN][1000 genomes]
rs1662846	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1712374	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1712379	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17427459	0.91[ASN][1000 genomes]
rs17427571	0.95[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.94[TSI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17499327	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17499732	0.91[EUR][1000 genomes]
rs17556750	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1878528	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1975474	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2011962	0.92[ASN][1000 genomes]
rs2034629	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2034632	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2058368	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2109662	0.81[ASN][1000 genomes]
rs2197271	0.85[ASN][1000 genomes]
rs28661028	0.83[ASN][1000 genomes]
rs2868182	0.84[ASN][1000 genomes]
rs3098970	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3098972	0.91[ASN][1000 genomes]
rs3098973	0.91[ASN][1000 genomes]
rs3114136	0.85[ASN][1000 genomes]
rs3114140	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34347934	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs41501452	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs41515854	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4463061	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs56075827	0.83[ASN][1000 genomes]
rs57222629	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58877260	0.83[ASN][1000 genomes]
rs59498284	0.83[ASN][1000 genomes]
rs60825648	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61371439	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62302285	0.84[ASN][1000 genomes]
rs62302286	0.85[ASN][1000 genomes]
rs62302305	0.84[ASN][1000 genomes]
rs62302308	0.89[ASN][1000 genomes]
rs62302314	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs62302352	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62303570	0.91[EUR][1000 genomes]
rs6535240	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6812825	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6813437	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6824784	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs710835	0.82[CHD][hapmap];1.00[JPT][hapmap]
rs710841	0.81[ASN][1000 genomes]
rs7658313	0.91[EUR][1000 genomes]
rs7661369	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7669368	0.91[EUR][1000 genomes]
rs7696324	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7698086	0.83[ASN][1000 genomes]
rs7699396	0.83[ASN][1000 genomes]
rs7699600	0.83[ASN][1000 genomes]
rs788855	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs788861	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs994014	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999729	chr4:81802554-82627820	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv537156	chr4:81802554-82627820	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv829985	chr4:82199328-82353656	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10488936	PRKG2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:82210600-82214200	Enhancers	Fetal Intestine Large	intestine
2	chr4:82211000-82215000	Enhancers	Fetal Intestine Small	intestine
3	chr4:82211600-82212600	Weak transcription	Fetal Kidney	kidney

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