Variant report

Variant	rs4714261
Chromosome Location	chr6:39539207-39539208
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10484823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947815	0.92[CEU][hapmap]
rs10947820	0.91[MEX][hapmap]
rs11751847	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs11752175	0.92[CEU][hapmap];0.87[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs11754808	0.92[CEU][hapmap];0.87[GIH][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs11755434	0.93[EUR][1000 genomes]
rs11757080	0.93[EUR][1000 genomes]
rs11758868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs11759743	0.92[EUR][1000 genomes]
rs12525519	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs12528130	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs13200342	0.93[EUR][1000 genomes]
rs13209820	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13213322	0.93[EUR][1000 genomes]
rs13213488	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1536700	0.92[CEU][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs16892194	1.00[CEU][hapmap];0.85[GIH][hapmap];0.96[TSI][hapmap];0.94[EUR][1000 genomes]
rs34081723	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34720944	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35516457	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714257	0.93[YRI][hapmap];0.90[AMR][1000 genomes]
rs4714258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55749620	0.93[EUR][1000 genomes]
rs56713174	0.91[EUR][1000 genomes]
rs6458119	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905995	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6913556	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927837	0.91[CEU][hapmap];0.85[GIH][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs6928195	0.91[CEU][hapmap];0.93[EUR][1000 genomes]
rs6928537	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6942056	0.87[EUR][1000 genomes]
rs71571377	0.88[EUR][1000 genomes]
rs725841	0.91[MEX][hapmap]
rs73732127	0.82[AMR][1000 genomes]
rs73732138	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73732153	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751353	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751706	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7751942	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs7754249	0.88[EUR][1000 genomes]
rs7769800	0.81[GIH][hapmap];0.81[MEX][hapmap]
rs7771470	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs7774528	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs7776284	0.91[MEX][hapmap]
rs9296301	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380876	0.80[AMR][1000 genomes]
rs9471123	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9471124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9471129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv508405	chr6:39538802-39602108	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Attention deficit hyperactivity disorder symptoms (interaction)	18846501	GWAS catalog

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4714261	BRPF3	cis	parietal	SCAN
rs4714261	CRIP3	cis	cerebellum	SCAN
rs4714261	C6orf226	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39528600-39545400	Weak transcription	Brain Anterior Caudate	brain
2	chr6:39536200-39540200	Weak transcription	Fetal Lung	lung
3	chr6:39537200-39540800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr6:39537200-39545400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:39537600-39541000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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