Variant report

Variant	rs9529077
Chromosome Location	chr13:67089093-67089094
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 113 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10507739	0.89[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs11148709	0.84[GIH][hapmap];0.83[TSI][hapmap]
rs12859352	0.92[ASN][1000 genomes]
rs12866298	0.88[ASN][1000 genomes]
rs12867615	0.97[ASN][1000 genomes]
rs12868791	0.88[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs12868964	0.89[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs12869171	0.89[ASN][1000 genomes]
rs12870336	0.95[ASN][1000 genomes]
rs12877241	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1470370	0.94[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17081420	0.97[ASN][1000 genomes]
rs17081458	0.89[ASN][1000 genomes]
rs17081462	0.89[ASN][1000 genomes]
rs17081473	0.89[ASN][1000 genomes]
rs17081495	0.83[ASN][1000 genomes]
rs1932881	0.89[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs1932883	1.00[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs1932886	0.89[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs2184841	0.85[ASN][1000 genomes]
rs2324915	0.89[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs2324917	0.82[GIH][hapmap];0.83[TSI][hapmap]
rs34979741	0.89[ASN][1000 genomes]
rs4144493	0.95[ASN][1000 genomes]
rs4242928	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4379952	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4516088	0.89[ASN][1000 genomes]
rs4883779	0.84[CEU][hapmap];0.89[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4883780	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4883781	0.82[ASW][hapmap];0.88[GIH][hapmap];0.94[LWK][hapmap];0.83[TSI][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes]
rs4884677	0.95[CEU][hapmap];0.92[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4884678	0.84[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55774405	0.87[ASN][1000 genomes]
rs56729791	0.87[ASN][1000 genomes]
rs61955971	0.89[ASN][1000 genomes]
rs67609817	0.89[ASN][1000 genomes]
rs7327487	0.84[JPT][hapmap]
rs7332539	1.00[ASW][hapmap];0.93[GIH][hapmap];0.97[LWK][hapmap];0.82[MKK][hapmap];0.89[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7335074	0.81[JPT][hapmap]
rs7336189	0.81[JPT][hapmap]
rs7981496	0.85[ASN][1000 genomes]
rs7984453	0.81[JPT][hapmap]
rs7984900	0.86[GIH][hapmap];0.83[TSI][hapmap]
rs7986003	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs7998584	0.85[ASN][1000 genomes]
rs9317591	0.94[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap]
rs9317595	0.84[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9317596	0.95[YRI][hapmap]
rs9529073	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9529076	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9529079	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9529081	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9529083	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9529084	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9529086	0.89[ASN][1000 genomes]
rs9529087	0.89[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9529092	0.87[ASN][1000 genomes]
rs9529098	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs9540770	0.94[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs9540771	0.80[EUR][1000 genomes]
rs9540772	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap]
rs9540776	0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9540784	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs9540785	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9540786	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9540787	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9540788	0.93[CHB][hapmap];0.92[CHD][hapmap];0.85[JPT][hapmap];0.95[ASN][1000 genomes]
rs9540789	0.95[ASN][1000 genomes]
rs9540790	0.95[ASN][1000 genomes]
rs9540791	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9540792	0.91[ASN][1000 genomes]
rs9540793	0.91[ASN][1000 genomes]
rs9540794	0.89[ASN][1000 genomes]
rs9540795	0.89[ASN][1000 genomes]
rs9540796	0.89[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs9540799	0.88[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9540800	0.89[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9540801	0.87[ASN][1000 genomes]
rs9540802	0.87[ASN][1000 genomes]
rs9540803	0.89[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9540804	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs9540809	0.84[CEU][hapmap];0.89[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap]
rs9540810	0.87[ASN][1000 genomes]
rs9540812	0.89[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9540813	0.89[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9540817	0.93[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs9564317	0.94[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs9564319	1.00[CEU][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9564320	0.88[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs9564321	0.84[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9564322	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9571587	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9571588	0.94[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap]
rs9571595	0.80[CEU][hapmap];0.89[CHB][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9571596	0.84[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530416	chr13:66198235-67126195	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1053763	chr13:66210166-67184972	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv541811	chr13:66210166-67184972	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv932195	chr13:66215786-67215733	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv530723	chr13:66219650-67200316	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv1052017	chr13:66232288-67213033	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv534503	chr13:66287963-67126195	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv915828	chr13:66544825-67212201	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
9	nsv1041133	chr13:66723731-67530595	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
10	nsv1051051	chr13:66948744-67126296	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv900390	chr13:66990736-67094634	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv2757538	chr13:67005812-67119200	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv2759943	chr13:67005812-67119200	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv2422196	chr13:67041890-67295480	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv832639	chr13:67049800-67223701	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv900391	chr13:67080274-67133203	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv900392	chr13:67080274-67166073	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv900393	chr13:67080274-67180045	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:67087600-67089200	Enhancers	Brain Cingulate Gyrus	brain
2	chr13:67087800-67089200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr13:67088000-67089200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr13:67088200-67089200	Enhancers	Brain Hippocampus Middle	brain
5	chr13:67088600-67094600	Weak transcription	Brain Substantia Nigra	brain
6	chr13:67089000-67090000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr13:67089000-67094600	Weak transcription	Brain Angular Gyrus	brain
8	chr13:67089000-67096600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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