Variant report

Variant	rs4398735
Chromosome Location	chr6:54884148-54884149
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10456177	0.82[EUR][1000 genomes]
rs10456178	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456691	0.83[EUR][1000 genomes]
rs11966562	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12192396	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195789	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12196771	0.83[EUR][1000 genomes]
rs12209948	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12213653	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2207026	1.00[CHB][hapmap]
rs3105258	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3125276	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4078034	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4236121	0.84[EUR][1000 genomes]
rs4236122	0.83[EUR][1000 genomes]
rs4283890	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4289638	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4339456	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4438959	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4518493	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4712085	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4712086	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4712090	0.84[EUR][1000 genomes]
rs4715497	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715498	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715516	0.84[EUR][1000 genomes]
rs62416360	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62416378	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62416416	0.83[EUR][1000 genomes]
rs62416556	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906829	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6907460	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6908172	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72975482	0.82[EUR][1000 genomes]
rs72978512	0.84[EUR][1000 genomes]
rs7746448	0.87[AMR][1000 genomes]
rs7755108	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9357829	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357831	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9370364	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9382434	0.86[AMR][1000 genomes];0.83[EUR][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	esv3364886	chr6:54880042-54912395	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
2	esv3368520	chr6:54881042-54905736	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
3	nsv1033756	chr6:54881828-54944304	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	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
rs4398735	DENND3	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54883800-54887800	Weak transcription	Primary hematopoietic stem cells	blood

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