Variant report

Variant	rs6439392
Chromosome Location	chr3:132945022-132945023
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10428109	0.82[JPT][hapmap]
rs10446319	0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs10446320	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs10512891	0.80[YRI][hapmap];0.83[AFR][1000 genomes]
rs10512895	0.82[JPT][hapmap]
rs10935058	0.86[JPT][hapmap]
rs11706654	0.91[JPT][hapmap]
rs11708546	0.80[ASN][1000 genomes]
rs11709944	0.82[JPT][hapmap]
rs11710126	0.87[JPT][hapmap]
rs11711460	0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs11712573	0.82[ASN][1000 genomes]
rs11916334	0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs11919147	0.86[JPT][hapmap]
rs11919306	0.86[JPT][hapmap]
rs11922161	0.82[JPT][hapmap]
rs11922891	0.87[JPT][hapmap]
rs11922977	0.82[JPT][hapmap]
rs11925164	0.82[JPT][hapmap]
rs11925242	0.87[JPT][hapmap]
rs11926108	0.82[JPT][hapmap]
rs12152547	0.82[JPT][hapmap]
rs12496099	0.82[JPT][hapmap]
rs12630271	0.81[JPT][hapmap]
rs12633060	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12634330	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12637903	0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs13063196	0.82[ASN][1000 genomes]
rs1355776	0.87[JPT][hapmap]
rs1513361	0.81[JPT][hapmap]
rs1513363	0.82[JPT][hapmap]
rs1513373	0.91[JPT][hapmap]
rs1542255	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16840213	0.82[JPT][hapmap]
rs16840271	0.91[JPT][hapmap]
rs17298063	0.82[JPT][hapmap]
rs1877586	0.82[JPT][hapmap]
rs1881919	0.82[JPT][hapmap]
rs1949220	0.87[JPT][hapmap]
rs2122399	0.82[JPT][hapmap]
rs2699869	0.82[JPT][hapmap]
rs2887628	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3849404	0.87[JPT][hapmap]
rs3849405	0.86[JPT][hapmap]
rs3849406	0.82[JPT][hapmap]
rs3897878	0.82[JPT][hapmap]
rs3953104	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4089503	0.86[JPT][hapmap]
rs4306857	0.80[CHD][hapmap]
rs4308273	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4459903	0.87[JPT][hapmap]
rs4507250	0.82[JPT][hapmap]
rs4600815	0.87[JPT][hapmap]
rs4854577	0.80[ASN][1000 genomes]
rs4854579	0.82[JPT][hapmap]
rs4854707	0.82[JPT][hapmap]
rs4854713	0.87[JPT][hapmap]
rs55856984	0.80[ASN][1000 genomes]
rs58238138	0.82[ASN][1000 genomes]
rs60961447	0.81[ASN][1000 genomes]
rs62280351	0.82[ASN][1000 genomes]
rs62280352	0.82[ASN][1000 genomes]
rs62280355	0.81[ASN][1000 genomes]
rs6766263	0.82[JPT][hapmap]
rs6774247	0.87[JPT][hapmap]
rs6788390	0.82[JPT][hapmap]
rs6791152	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797056	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805892	0.82[JPT][hapmap]
rs7617947	0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs7622617	0.82[JPT][hapmap]
rs7624858	0.82[JPT][hapmap]
rs7627254	0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs7634139	0.82[JPT][hapmap]
rs7636781	0.86[JPT][hapmap]
rs7638408	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7639076	0.82[JPT][hapmap]
rs7644980	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs7648973	0.82[JPT][hapmap]
rs766952	0.82[JPT][hapmap]
rs769097	0.87[JPT][hapmap]
rs9809358	0.82[JPT][hapmap]
rs9866337	0.82[JPT][hapmap]
rs9968195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530055	chr3:132380878-132982343	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:132943200-132948000	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:132943600-132948800	Weak transcription	Fetal Brain Female	brain

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