Variant report

Variant	rs6721641
Chromosome Location	chr2:125725374-125725375
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10165689	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10189275	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11891962	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11894518	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs11898056	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12711693	0.81[CHB][hapmap]
rs1340187	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361439	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17637918	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17637939	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1840202	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1840205	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs1840206	0.88[EUR][1000 genomes]
rs1840207	0.92[CEU][hapmap];0.81[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.93[JPT][hapmap];0.93[TSI][hapmap];0.85[YRI][hapmap];0.88[EUR][1000 genomes]
rs1966870	0.92[CEU][hapmap];0.81[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.93[JPT][hapmap];0.93[TSI][hapmap]
rs2068359	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2226028	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2249026	0.84[CEU][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs2602644	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2602645	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2602646	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2602647	0.92[CEU][hapmap];0.95[CHD][hapmap];0.80[GIH][hapmap];0.93[JPT][hapmap];0.93[TSI][hapmap]
rs2602649	0.92[CEU][hapmap];0.81[CHB][hapmap];0.80[JPT][hapmap];0.90[YRI][hapmap]
rs2602655	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2685170	0.92[CEU][hapmap];0.81[CHB][hapmap];0.93[JPT][hapmap]
rs2791629	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2791631	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2791636	0.95[CHD][hapmap];0.86[JPT][hapmap]
rs314700	0.81[CHB][hapmap]
rs58560012	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62173301	0.93[ASN][1000 genomes]
rs6541974	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6716082	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs730668	0.81[CHB][hapmap];0.85[JPT][hapmap]

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	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
2	nsv874991	chr2:125692490-125901811	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6721641	WDR33	cis	parietal	SCAN
rs6721641	AMMECR1L	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:125724000-125725800	Enhancers	Brain Anterior Caudate	brain
2	chr2:125724000-125725800	Enhancers	Brain Substantia Nigra	brain
3	chr2:125724800-125725800	Enhancers	Brain Hippocampus Middle	brain
4	chr2:125725200-125725400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr2:125725200-125725400	Enhancers	Brain Cingulate Gyrus	brain

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