Variant report

Variant	rs6447602
Chromosome Location	chr4:47959022-47959023
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10002498	0.84[EUR][1000 genomes]
rs10020447	0.81[EUR][1000 genomes]
rs10461075	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10938508	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11732840	0.84[EUR][1000 genomes]
rs11946535	0.84[EUR][1000 genomes]
rs12506026	0.84[EUR][1000 genomes]
rs1371728	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1545200	0.81[EUR][1000 genomes]
rs1550444	0.84[EUR][1000 genomes]
rs1808853	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1968542	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1972883	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1972884	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2119204	0.81[EUR][1000 genomes]
rs2119208	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2352456	0.84[EUR][1000 genomes]
rs2352457	0.84[EUR][1000 genomes]
rs2352463	0.84[EUR][1000 genomes]
rs2352466	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28464733	0.84[EUR][1000 genomes]
rs2882950	0.84[EUR][1000 genomes]
rs3762858	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3762859	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3811761	0.84[EUR][1000 genomes]
rs3845160	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4507330	0.84[EUR][1000 genomes]
rs4694878	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4695309	0.83[EUR][1000 genomes]
rs4695312	0.84[EUR][1000 genomes]
rs4695316	0.84[EUR][1000 genomes]
rs6447596	0.82[EUR][1000 genomes]
rs6447599	0.84[EUR][1000 genomes]
rs6815975	0.84[EUR][1000 genomes]
rs6819506	0.84[EUR][1000 genomes]
rs6823572	0.84[EUR][1000 genomes]
rs6826190	0.82[EUR][1000 genomes]
rs6826909	0.84[EUR][1000 genomes]
rs6832334	0.84[EUR][1000 genomes]
rs6833320	0.84[EUR][1000 genomes]
rs6845451	0.81[EUR][1000 genomes]
rs7668778	0.84[EUR][1000 genomes]
rs7690406	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7690522	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs893861	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9291318	0.84[EUR][1000 genomes]
rs9291319	0.84[EUR][1000 genomes]
rs9995022	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447039	chr4:47822266-48285222	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1013947	chr4:47915527-48052824	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv537082	chr4:47915527-48052824	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1006745	chr4:47935250-48052824	Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv537083	chr4:47935250-48052824	Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv967291	chr4:47954000-47981934	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6447602	CNGA1	cis	Thyroid	GTEx
rs6447602	CNGA1	cis	Esophagus Muscularis	GTEx
rs6447602	CNGA1	cis	Muscle Skeletal	GTEx
rs6447602	CNGA1	cis	Heart Left Ventricle	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:47954600-47959200	Weak transcription	Right Atrium	heart

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