Variant report

Variant	rs4396547
Chromosome Location	chr16:80329566-80329567
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1094134	0.94[EUR][1000 genomes]
rs1094137	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11150257	0.86[EUR][1000 genomes]
rs11150264	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11150265	0.87[EUR][1000 genomes]
rs11150266	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11150267	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11150268	0.89[EUR][1000 genomes]
rs11640342	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11645030	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11645305	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11646502	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11866338	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12444960	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12448004	0.85[EUR][1000 genomes]
rs12597946	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12600307	0.80[ASN][1000 genomes]
rs12918117	0.90[ASN][1000 genomes]
rs12922310	0.90[ASN][1000 genomes]
rs12922572	0.90[ASN][1000 genomes]
rs12924620	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12935043	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12935352	0.90[ASN][1000 genomes]
rs1484033	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1484034	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2102858	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2170827	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2348640	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2626634	0.80[EUR][1000 genomes]
rs2626652	0.84[ASN][1000 genomes]
rs2626653	0.92[EUR][1000 genomes]
rs4359452	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4360953	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4448956	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7186257	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7187041	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7190266	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7193250	0.87[EUR][1000 genomes]
rs7193273	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7196509	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7197047	0.81[EUR][1000 genomes]
rs7201345	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7201635	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8044461	0.85[EUR][1000 genomes]
rs820810	0.92[EUR][1000 genomes]
rs820811	0.92[EUR][1000 genomes]
rs820812	0.93[EUR][1000 genomes]
rs875081	0.91[EUR][1000 genomes]
rs939000	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9922405	0.83[EUR][1000 genomes]
rs9923010	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055228	chr16:80207546-80378842	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1061068	chr16:80207546-80537052	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1064093	chr16:80208443-80333301	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv542985	chr16:80208443-80333301	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1063466	chr16:80227628-80360463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv906996	chr16:80230224-80334010	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv573295	chr16:80251265-80341115	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv949197	chr16:80284557-80456403	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv1064628	chr16:80286004-80406177	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv542986	chr16:80286004-80406177	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	esv2762333	chr16:80307755-80509983	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv573296	chr16:80315263-80338877	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv1056026	chr16:80317627-80471469	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv542987	chr16:80317627-80471469	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	nsv906998	chr16:80320056-80371102	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	esv33683	chr16:80325303-80334014	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4396547	CDH13	cis	parietal	SCAN
rs4396547	GAN	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:80329200-80330400	Weak transcription	HUVEC	blood vessel

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