Variant report

Variant	rs11966562
Chromosome Location	chr6:54926875-54926876
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10456178	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12191770	0.82[ASN][1000 genomes]
rs12192396	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12195789	0.88[ASN][1000 genomes]
rs12199525	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12209948	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12213653	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs148109	0.91[MKK][hapmap]
rs2207026	1.00[CHB][hapmap]
rs239790	0.91[MKK][hapmap]
rs239837	0.85[MKK][hapmap]
rs2816811	0.91[MKK][hapmap]
rs3125276	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4236121	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4236122	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4283890	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4289638	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4339456	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4398735	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4438959	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4518493	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4712085	0.82[AMR][1000 genomes]
rs4712086	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4712089	0.82[ASN][1000 genomes]
rs4712090	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4715497	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4715498	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4715516	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56217917	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56776090	0.82[ASN][1000 genomes]
rs62416360	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62416373	0.80[EUR][1000 genomes]
rs62416378	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62416416	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62416556	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6906829	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6907460	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6908172	0.80[EUR][1000 genomes]
rs72975482	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72978512	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7738254	0.81[EUR][1000 genomes]
rs7746448	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7755108	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9357829	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9357831	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9370364	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9382434	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033756	chr6:54881828-54944304	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv538225	chr6:54881828-54944304	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11966562	DENND3	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54918000-54928200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:54926800-54927000	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle

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