Variant report

Variant	rs477737
Chromosome Location	chr6:140406272-140406273
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10499217	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10499218	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11751210	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11753982	0.91[EUR][1000 genomes]
rs11754152	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11754864	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11755397	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11756192	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs11758188	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11758612	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11758718	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11759030	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1324127	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324129	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437498	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1361247	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1408295	0.88[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes]
rs1582145	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17069692	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17214668	1.00[CHB][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17755520	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17755892	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17756503	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17756562	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17756688	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17757864	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17811661	0.90[EUR][1000 genomes]
rs17811691	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17811871	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17812354	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17812384	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17812480	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17812617	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17812647	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17812736	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1890428	1.00[JPT][hapmap]
rs1933741	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs201279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs201280	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35441484	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4895580	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4895581	0.85[EUR][1000 genomes]
rs4896502	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs4896504	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4896505	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4896506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4896507	0.88[EUR][1000 genomes]
rs496953	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55732492	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55738757	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55834276	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55902158	0.84[EUR][1000 genomes]
rs55907136	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56022257	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56030520	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56202454	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56296431	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58650930	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs593265	0.90[EUR][1000 genomes]
rs59665575	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs597854	0.90[EUR][1000 genomes]
rs608185	0.90[EUR][1000 genomes]
rs615587	0.90[EUR][1000 genomes]
rs638899	0.90[EUR][1000 genomes]
rs645740	0.90[EUR][1000 genomes]
rs656337	0.90[EUR][1000 genomes]
rs656363	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs657276	0.90[EUR][1000 genomes]
rs659714	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs661507	0.90[EUR][1000 genomes]
rs671038	0.90[EUR][1000 genomes]
rs6913694	1.00[JPT][hapmap]
rs6925609	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72975808	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72975814	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72988718	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72988720	0.91[EUR][1000 genomes]
rs72988721	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72988724	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72988734	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72988736	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72988741	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988745	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72988750	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988752	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988753	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988755	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988756	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988758	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988759	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72988761	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72990622	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72990629	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7769264	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs924090	0.83[EUR][1000 genomes]
rs9484333	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9495619	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9495621	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs953112	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1019508	chr6:140317472-140434466	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1022987	chr6:140344229-140463916	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs477737	PBOV1	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140401000-140407200	Weak transcription	Ovary	ovary
2	chr6:140404400-140407000	Weak transcription	Left Ventricle	heart
3	chr6:140404400-140407200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:140404400-140407600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:140404400-140414400	Weak transcription	Placenta	Placenta
6	chr6:140405400-140406600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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