Variant report

Variant	rs1477854
Chromosome Location	chr3:110750176-110750177
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs11717706	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11919892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11927478	0.81[ASN][1000 genomes]
rs11929280	0.85[CEU][hapmap]
rs13060876	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13061640	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13072462	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1381836	0.85[CEU][hapmap]
rs1382075	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1462789	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs1462790	0.84[AFR][1000 genomes]
rs1462795	0.84[AFR][1000 genomes]
rs1477841	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs1477842	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs1477843	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1477846	1.00[CEU][hapmap];0.92[TSI][hapmap]
rs1477847	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1477848	1.00[CEU][hapmap];0.92[TSI][hapmap]
rs1477850	0.85[CEU][hapmap]
rs1477851	1.00[ASW][hapmap];0.86[CEU][hapmap];0.96[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap]
rs1477855	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547518	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1580288	0.82[AFR][1000 genomes]
rs1585629	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1599663	0.81[AFR][1000 genomes]
rs1599664	0.81[AFR][1000 genomes]
rs1600059	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16857350	0.85[CEU][hapmap]
rs1824666	0.81[AFR][1000 genomes]
rs1871026	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1903755	0.84[AFR][1000 genomes]
rs2126710	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2126711	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2126712	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2126713	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2169643	0.85[CEU][hapmap];0.80[MEX][hapmap]
rs2399373	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2399375	1.00[CEU][hapmap]
rs28772911	0.87[ASN][1000 genomes]
rs2895376	0.83[AFR][1000 genomes]
rs4102676	0.84[AFR][1000 genomes]
rs4682028	0.81[AFR][1000 genomes]
rs4682229	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4682230	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.93[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];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4682234	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs4682238	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6437940	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs6437947	0.83[AFR][1000 genomes]
rs6437948	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs6437953	1.00[CEU][hapmap];0.96[MKK][hapmap];0.92[TSI][hapmap]
rs66845903	0.99[ASN][1000 genomes]
rs6763050	0.85[CEU][hapmap]
rs6765948	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6781480	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6790828	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6794645	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs723023	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs7430600	1.00[ASW][hapmap];1.00[CEU][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];1.00[YRI][hapmap]
rs7433877	0.85[CEU][hapmap]
rs7610760	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs7612572	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7612667	0.82[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7620372	0.80[MEX][hapmap]
rs7623880	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7632375	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7632388	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7648752	0.82[CEU][hapmap]
rs7653595	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[YRI][hapmap]
rs873132	0.85[CEU][hapmap]
rs9288918	0.85[CEU][hapmap]
rs969940	0.85[CEU][hapmap]
rs9817950	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9818950	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9821335	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.87[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];0.92[TSI][hapmap];0.94[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9826064	0.84[AFR][1000 genomes]
rs9828899	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9837377	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9839299	0.81[AFR][1000 genomes]
rs9839674	0.84[AFR][1000 genomes]
rs9847598	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866028	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs9876350	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9877855	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882945	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv829674	chr3:110616256-110771049	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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
7	esv1818353	chr3:110724133-110750176	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110749200-110750400	Weak transcription	Placenta	Placenta
2	chr3:110749800-110751000	Enhancers	Fetal Intestine Large	intestine

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