Variant report

Variant	rs6797343
Chromosome Location	chr3:89268714-89268715
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1040016	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs11916046	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs11916939	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs11920519	0.90[CEU][hapmap];0.82[CHB][hapmap];0.83[EUR][1000 genomes]
rs11929346	0.82[CEU][hapmap];0.83[YRI][hapmap]
rs12486528	0.89[YRI][hapmap]
rs12486971	0.82[CEU][hapmap]
rs12494816	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs12496485	0.82[CEU][hapmap]
rs13060907	0.83[EUR][1000 genomes]
rs13077331	0.92[JPT][hapmap]
rs13097740	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs13098003	0.80[YRI][hapmap]
rs13100590	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs17026797	0.84[EUR][1000 genomes]
rs17026821	0.81[EUR][1000 genomes]
rs1996068	0.86[CEU][hapmap];0.83[CHB][hapmap];0.81[EUR][1000 genomes]
rs1996069	0.82[CEU][hapmap]
rs2346324	0.81[EUR][1000 genomes]
rs2346325	0.82[EUR][1000 genomes]
rs34046877	0.83[EUR][1000 genomes]
rs35532963	0.81[EUR][1000 genomes]
rs36076607	0.81[EUR][1000 genomes]
rs3946805	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs60475411	0.83[EUR][1000 genomes]
rs6551395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6551397	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6551398	0.89[JPT][hapmap]
rs6767230	0.91[JPT][hapmap]
rs6777119	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs6779710	0.91[JPT][hapmap]
rs6790662	0.91[JPT][hapmap]
rs6791217	0.91[CEU][hapmap];0.83[CHB][hapmap];0.83[EUR][1000 genomes]
rs6793981	0.92[JPT][hapmap]
rs6794198	0.89[CEU][hapmap];0.82[CHB][hapmap];0.83[EUR][1000 genomes]
rs6794682	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6800287	0.84[JPT][hapmap]
rs6804377	0.91[JPT][hapmap]
rs6807840	0.92[JPT][hapmap]
rs71322864	0.83[EUR][1000 genomes]
rs71322865	0.81[EUR][1000 genomes]
rs7426466	0.92[JPT][hapmap]
rs7426527	0.87[JPT][hapmap]
rs7427745	0.90[JPT][hapmap]
rs7433634	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7617920	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7622368	0.84[JPT][hapmap]
rs7629132	0.90[CEU][hapmap];0.82[CHB][hapmap];0.83[EUR][1000 genomes]
rs7631304	0.82[CEU][hapmap];0.86[YRI][hapmap]
rs7633559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9310113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9310115	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9310116	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9810701	0.91[JPT][hapmap]
rs9811026	0.91[JPT][hapmap]
rs9814718	0.92[JPT][hapmap]
rs9815137	0.92[JPT][hapmap]
rs9828822	0.91[JPT][hapmap]
rs9859735	0.91[JPT][hapmap]
rs9860030	0.83[JPT][hapmap]
rs9861649	0.92[JPT][hapmap]
rs9866327	0.85[CEU][hapmap];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9868041	0.92[JPT][hapmap]

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	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv437866	chr3:89247881-89480265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2757001	chr3:89260495-89271087	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
5	esv2759160	chr3:89260495-89271087	Weak transcription Flanking Active TSS Enhancers Active TSS	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89263600-89277000	Weak transcription	Brain Germinal Matrix	brain
2	chr3:89266200-89272200	Weak transcription	Fetal Brain Male	brain
3	chr3:89266400-89270200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr3:89266400-89277800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:89267200-89270400	Weak transcription	Fetal Brain Female	brain

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