Variant report

Variant	rs12352657
Chromosome Location	chr9:18999255-18999256
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 114 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs10116436	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10121747	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10125038	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10757004	0.83[CHB][hapmap]
rs10757007	0.83[CHB][hapmap]
rs10757008	0.83[CHB][hapmap]
rs10757016	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[JPT][hapmap]
rs10757018	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10757020	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs10757021	0.89[ASN][1000 genomes]
rs10757022	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs10811073	0.92[ASN][1000 genomes]
rs10811074	0.92[ASN][1000 genomes]
rs10811075	0.82[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10811076	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10811078	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10811079	0.99[ASN][1000 genomes]
rs10811080	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10811081	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10811082	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10811083	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10811084	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10811085	0.82[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10811092	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10811099	0.83[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs10811100	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10963894	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10963896	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10963897	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10963898	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10963907	0.96[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10963909	0.80[AMR][1000 genomes]
rs10963910	1.00[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10963911	0.93[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10963912	0.92[CEU][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11790123	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs12352756	0.91[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12553946	0.87[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs13284512	0.81[CEU][hapmap];0.91[ASN][1000 genomes]
rs1344007	0.83[CHB][hapmap]
rs17236081	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1887444	0.83[CHB][hapmap]
rs1932445	0.95[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs1932447	0.90[ASN][1000 genomes]
rs1932452	0.82[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs1932453	0.84[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2152463	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2152464	0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2184656	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs2383082	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2383083	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs35150512	0.89[ASN][1000 genomes]
rs3892045	0.85[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs4130084	0.91[ASN][1000 genomes]
rs4287026	0.85[ASN][1000 genomes]
rs4380900	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4395970	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[JPT][hapmap]
rs4506313	0.91[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs4977273	0.91[CHB][hapmap]
rs4977477	0.84[CHB][hapmap]
rs56254400	0.88[ASN][1000 genomes]
rs62560430	0.91[ASN][1000 genomes]
rs6475295	0.86[CHB][hapmap]
rs6475298	0.87[CHB][hapmap]
rs6475299	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6475300	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6475301	0.84[ASN][1000 genomes]
rs6475304	0.89[ASN][1000 genomes]
rs6475305	0.99[ASN][1000 genomes]
rs6475306	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs66688010	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7020294	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7021572	0.83[CHB][hapmap]
rs7022960	0.92[ASN][1000 genomes]
rs7024697	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7025123	0.82[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7028858	0.82[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7028936	0.82[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7029677	0.92[ASN][1000 genomes]
rs7037262	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7037837	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7038730	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs7045059	0.84[CHB][hapmap]
rs7048198	0.84[CHB][hapmap]
rs7048386	0.89[ASN][1000 genomes]
rs7848929	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7849807	0.83[CHB][hapmap]
rs7852907	0.87[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7856117	0.86[CHB][hapmap]
rs7857590	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7858618	0.81[JPT][hapmap]
rs7861842	0.89[ASN][1000 genomes]
rs7862694	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap]
rs7864376	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7864909	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7864930	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7865237	0.84[CHB][hapmap]
rs7867428	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7870547	0.97[ASN][1000 genomes]
rs7871030	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7871205	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7871456	0.91[CHB][hapmap]
rs7871505	0.81[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7875035	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs883439	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap]
rs953734	0.91[CHB][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv892692	chr9:18519699-19045502	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1017820	chr9:18882219-19587377	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
5	nsv540078	chr9:18882219-19587377	Genic enhancers Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
6	nsv892699	chr9:18945868-19025693	Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1022697	chr9:18951530-19010894	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv892700	chr9:18979441-19156784	Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18999200-18999400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:18999200-18999400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr9:18999200-18999600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:18999200-19000400	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell

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