Variant report

Variant	rs4856559
Chromosome Location	chr3:85084563-85084564
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1016305	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs1016306	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs10433523	0.81[EUR][1000 genomes]
rs11127873	0.82[EUR][1000 genomes]
rs1248858	0.85[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs1248859	0.80[CHB][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs13072305	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13081745	0.85[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs1694977	0.81[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs1872556	0.86[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs1994315	0.83[CEU][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2035561	0.85[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs2035562	0.81[CHB][hapmap];0.84[ASN][1000 genomes]
rs2062431	0.95[CEU][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2087011	0.80[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2200461	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2220243	0.89[CEU][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2326123	0.86[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs2326126	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2326128	0.82[EUR][1000 genomes]
rs4301023	0.80[CHB][hapmap]
rs4410457	0.82[EUR][1000 genomes]
rs4499618	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4569672	0.84[ASN][1000 genomes]
rs4856560	0.95[CEU][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6549009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6549011	0.81[EUR][1000 genomes]
rs6549012	0.82[EUR][1000 genomes]
rs6765011	0.82[EUR][1000 genomes]
rs6768559	0.94[CEU][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6790864	0.82[EUR][1000 genomes]
rs6796393	0.82[EUR][1000 genomes]
rs6801271	0.86[CHB][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7636138	0.82[EUR][1000 genomes]
rs7645952	0.94[CEU][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7647649	0.83[CEU][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7651996	0.80[CHB][hapmap]
rs765461	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9814390	0.84[CEU][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9814835	0.82[EUR][1000 genomes]
rs9820587	0.82[EUR][1000 genomes]
rs9855054	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9869902	0.95[CEU][hapmap];0.97[AMR][1000 genomes];0.96[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	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv1829788	chr3:84926769-85086403	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85068600-85090600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:85079600-85086400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:85081400-85088800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:85082200-85086400	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:85082200-85088800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr3:85082600-85090000	Weak transcription	Fetal Brain Female	brain
7	chr3:85082600-85090400	Weak transcription	Fetal Brain Male	brain
8	chr3:85082600-85091600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:85083000-85090800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:85083200-85088800	Weak transcription	Brain Anterior Caudate	brain
11	chr3:85083600-85088800	Weak transcription	Brain Angular Gyrus	brain
12	chr3:85083800-85089000	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:85083800-85089200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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