Variant report

Variant	rs6445194
Chromosome Location	chr3:61111195-61111196
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11711708	1.00[JPT][hapmap]
rs11712505	0.93[JPT][hapmap]
rs11718931	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13079703	0.93[ASN][1000 genomes]
rs13095410	0.93[JPT][hapmap]
rs13095530	0.93[JPT][hapmap]
rs1347852	0.84[GIH][hapmap]
rs1439005	0.85[JPT][hapmap]
rs1439007	1.00[JPT][hapmap]
rs1439008	0.93[JPT][hapmap]
rs1554601	0.82[JPT][hapmap]
rs1898752	0.93[JPT][hapmap]
rs2083264	0.86[JPT][hapmap]
rs2165044	0.91[JPT][hapmap]
rs2365057	0.85[JPT][hapmap]
rs35195170	0.96[ASN][1000 genomes]
rs35555910	0.85[ASN][1000 genomes]
rs6445190	0.86[JPT][hapmap]
rs6445191	0.86[JPT][hapmap]
rs6445192	0.93[JPT][hapmap]
rs6764497	0.86[JPT][hapmap]
rs6774194	0.86[JPT][hapmap]
rs73112334	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7626576	0.99[ASN][1000 genomes]
rs7626688	1.00[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.99[ASN][1000 genomes]
rs7642109	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7643983	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7650309	0.84[GIH][hapmap];0.93[JPT][hapmap]
rs9820971	0.85[JPT][hapmap]
rs9825823	0.91[GIH][hapmap];0.86[JPT][hapmap];0.82[TSI][hapmap]
rs9830950	1.00[JPT][hapmap]
rs9845837	0.84[GIH][hapmap];0.93[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2759152	chr3:60781943-61220809	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv915904	chr3:60952040-61125194	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1012510	chr3:60952040-61131709	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv536578	chr3:60952040-61131709	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv948633	chr3:60993915-61171279	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv834710	chr3:60995631-61148157	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv2757873	chr3:61019003-61185558	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv2756993	chr3:61064432-61119923	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
12	nsv1000378	chr3:61103229-61238089	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6445194	PTPRG	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61103400-61120600	Weak transcription	Ovary	ovary
2	chr3:61107800-61128000	Weak transcription	Primary T cells from cord blood	blood
3	chr3:61109800-61112200	Weak transcription	Primary hematopoietic stem cells	blood

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