Variant report

Variant	rs13402201
Chromosome Location	chr2:98852040-98852041
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1010387	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13430738	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13431508	0.97[AFR][1000 genomes]
rs17427608	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17427825	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17428745	0.90[AMR][1000 genomes]
rs17428990	0.90[AMR][1000 genomes]
rs17500406	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17501094	0.90[AMR][1000 genomes]
rs4564827	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62155312	0.90[AMR][1000 genomes]
rs62155317	0.90[AMR][1000 genomes]
rs62155347	0.90[AMR][1000 genomes]
rs62155354	0.90[AMR][1000 genomes]
rs62155355	0.86[AMR][1000 genomes]
rs62156663	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62156681	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62156686	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62156724	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62156744	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62157892	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62157901	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62157907	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62157908	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62157916	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72817785	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72817792	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72817793	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72819903	0.90[AMR][1000 genomes]
rs9808347	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518056	chr2:98586842-99156296	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1004082	chr2:98792256-98967681	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv535833	chr2:98792256-98967681	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv582513	chr2:98829237-98869914	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv582514	chr2:98835962-98869914	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:98851000-98857600	Weak transcription	Brain Substantia Nigra	brain
2	chr2:98851400-98856800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr2:98851600-98856800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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