Variant report

Variant	rs3904472
Chromosome Location	chr9:3073429-3073430
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10481583	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12347710	0.82[ASN][1000 genomes]
rs12347863	0.83[ASN][1000 genomes]
rs16913918	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3904471	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57319011	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57587381	1.00[EUR][1000 genomes]
rs59364930	0.84[ASN][1000 genomes]
rs6476195	0.84[ASN][1000 genomes]
rs7041084	0.90[ASN][1000 genomes]
rs73391506	0.84[ASN][1000 genomes]
rs73391514	0.84[ASN][1000 genomes]
rs73391528	0.83[ASN][1000 genomes]
rs73391535	0.83[ASN][1000 genomes]
rs73391557	0.89[ASN][1000 genomes]
rs73391560	0.89[ASN][1000 genomes]
rs73391587	0.90[ASN][1000 genomes]
rs73639945	1.00[ASN][1000 genomes]
rs73639946	1.00[ASN][1000 genomes]
rs7854017	0.84[ASN][1000 genomes]
rs9792425	0.83[ASN][1000 genomes]
rs9792572	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv892085	chr9:2937654-3215842	Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv831494	chr9:3007268-3172056	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv892086	chr9:3012276-3410838	Bivalent Enhancer ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv892087	chr9:3014702-3153178	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1017474	chr9:3019068-3247215	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv892088	chr9:3019383-3215842	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1025022	chr9:3024191-3074498	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1020101	chr9:3060187-3099009	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv466089	chr9:3061261-3120123	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv613144	chr9:3061261-3120123	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:3073400-3074800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:3073400-3074800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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