Variant report

Variant	rs6781480
Chromosome Location	chr3:110775099-110775100
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs11717706	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11919892	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11927478	0.80[ASN][1000 genomes]
rs11929280	0.82[CEU][hapmap]
rs13060876	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13061640	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13072462	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13093206	0.81[AFR][1000 genomes]
rs1381836	0.82[CEU][hapmap]
rs1382075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1462789	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1462790	0.82[AFR][1000 genomes]
rs1462795	0.82[AFR][1000 genomes]
rs1477841	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs1477842	1.00[CEU][hapmap];0.88[YRI][hapmap]
rs1477843	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1477846	1.00[CEU][hapmap]
rs1477847	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1477848	1.00[CEU][hapmap]
rs1477851	0.85[CEU][hapmap];1.00[YRI][hapmap]
rs1477854	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1477855	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1547518	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1580288	0.81[AFR][1000 genomes]
rs1585629	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1600059	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16857350	0.82[CEU][hapmap]
rs1871026	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1903755	0.82[AFR][1000 genomes]
rs2126710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126711	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126712	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126713	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2169643	0.82[CEU][hapmap]
rs2399373	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2399375	1.00[CEU][hapmap]
rs28772911	0.89[ASN][1000 genomes]
rs2895376	0.81[AFR][1000 genomes]
rs4102676	0.82[AFR][1000 genomes]
rs4682033	0.81[AFR][1000 genomes]
rs4682229	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4682230	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4682231	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4682234	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs4682238	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs55774570	0.81[AFR][1000 genomes]
rs56668317	0.81[AFR][1000 genomes]
rs6437940	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs6437947	0.85[AFR][1000 genomes]
rs6437948	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs6437952	0.81[AFR][1000 genomes]
rs6437953	1.00[CEU][hapmap]
rs66845903	1.00[ASN][1000 genomes]
rs6763050	0.82[CEU][hapmap]
rs6765948	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6790828	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6794645	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs723023	0.81[AFR][1000 genomes]
rs7430600	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7433877	0.82[CEU][hapmap]
rs7610760	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs7612572	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7612667	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7623880	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7632375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7632388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653595	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[YRI][hapmap]
rs873132	0.82[CEU][hapmap]
rs9288918	0.82[CEU][hapmap]
rs969940	0.82[CEU][hapmap]
rs9817950	0.84[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs9818950	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9821335	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9826064	0.82[AFR][1000 genomes]
rs9828899	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9837377	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9839674	0.82[AFR][1000 genomes]
rs9847598	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9866028	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs9876350	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9877855	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	esv1850918	chr3:110685181-110889974	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110765000-110788800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:110768600-110775200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:110768800-110776400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:110773600-110776000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:110774000-110782000	Weak transcription	Ovary	ovary

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