Variant report

Variant	rs1840209
Chromosome Location	chr2:125625402-125625403
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10165137	0.85[GIH][hapmap];0.92[LWK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10168923	0.85[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10185390	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10187198	0.81[AMR][1000 genomes]
rs10191955	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10202474	0.81[AMR][1000 genomes]
rs10210076	0.96[YRI][hapmap]
rs10210543	0.85[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs11886397	0.81[AMR][1000 genomes]
rs13403519	0.85[GIH][hapmap];1.00[TSI][hapmap]
rs13407542	1.00[EUR][1000 genomes]
rs13427883	1.00[YRI][hapmap]
rs13427956	0.95[YRI][hapmap]
rs17012102	0.85[GIH][hapmap];0.89[LWK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17012116	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs17012123	0.85[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1840210	0.85[GIH][hapmap];1.00[TSI][hapmap]
rs55644023	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56271052	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57373389	1.00[EUR][1000 genomes]
rs62171358	0.81[AMR][1000 genomes]
rs62171359	0.81[AMR][1000 genomes]
rs62173261	0.81[AMR][1000 genomes]
rs73955848	0.81[AMR][1000 genomes]
rs73955852	0.81[AMR][1000 genomes]
rs7567297	0.81[AMR][1000 genomes]
rs7571244	0.85[GIH][hapmap];1.00[TSI][hapmap]
rs7604892	0.81[AMR][1000 genomes]
rs7606120	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834360	chr2:125492685-125683200	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv834361	chr2:125601081-125810992	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1840209	CCL3	trans	brain	seeQTL
rs1840209	EGR2	trans	brain	seeQTL
rs1840209	CCL4	trans	brain	seeQTL
rs1840209	FOSB	trans	brain	seeQTL
rs1840209	ZNF331	trans	brain	seeQTL
rs1840209	PTGS2	trans	brain	seeQTL

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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