Variant report

Variant	rs961465
Chromosome Location	chr8:69569483-69569484
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10101569	0.82[ASN][1000 genomes]
rs10957442	0.83[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs10957444	0.86[JPT][hapmap]
rs1116986	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs11780358	0.86[ASN][1000 genomes]
rs11780828	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11781537	0.82[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs11781575	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs12675138	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs12681467	0.82[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs13263978	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs13275978	0.82[ASN][1000 genomes]
rs1434929	0.81[ASN][1000 genomes]
rs1434935	0.87[CHB][hapmap];0.86[JPT][hapmap]
rs1434936	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs1434937	0.86[JPT][hapmap]
rs1434938	0.86[JPT][hapmap]
rs1583423	0.86[ASN][1000 genomes]
rs16919105	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1865440	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1865441	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1865443	0.95[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1897906	0.83[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1991960	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2082723	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs2196255	0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2196256	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2890437	0.86[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62520961	0.95[ASN][1000 genomes]
rs62520962	0.88[ASN][1000 genomes]
rs62520963	0.82[ASN][1000 genomes]
rs62520966	0.82[ASN][1000 genomes]
rs6982247	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6982315	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs6982710	0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7007623	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7464474	0.82[ASN][1000 genomes]
rs766871	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs7812470	0.81[ASN][1000 genomes]
rs959451	0.82[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs968826	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[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	nsv948687	chr8:69041121-69642540	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv890985	chr8:69532253-69586034	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv831349	chr8:69555461-69733515	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs961465	NCOA2	cis	parietal	SCAN
rs961465	PKIG	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:69545200-69572800	Weak transcription	Aorta	Aorta
2	chr8:69569200-69569800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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