Variant report

Variant	rs1039814
Chromosome Location	chr9:15578530-15578531
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 151 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs1039813	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10481557	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10738400	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10738402	0.86[EUR][1000 genomes]
rs10738404	0.82[EUR][1000 genomes]
rs10738405	0.82[EUR][1000 genomes]
rs10738406	0.82[EUR][1000 genomes]
rs10756670	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10756671	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10756672	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10756674	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10756676	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10756677	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10756678	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10756679	0.90[EUR][1000 genomes]
rs10756680	0.91[EUR][1000 genomes]
rs10756686	0.89[EUR][1000 genomes]
rs10756687	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10756688	0.90[EUR][1000 genomes]
rs10756689	0.90[EUR][1000 genomes]
rs10756690	0.85[EUR][1000 genomes]
rs10756692	0.80[EUR][1000 genomes]
rs10756694	0.82[EUR][1000 genomes]
rs10756695	0.81[EUR][1000 genomes]
rs10756696	0.81[EUR][1000 genomes]
rs10810399	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10810400	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10810401	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10810402	0.98[EUR][1000 genomes]
rs10810405	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10810407	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10810408	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10810409	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10810410	0.82[EUR][1000 genomes]
rs10810416	0.81[EUR][1000 genomes]
rs10810419	0.81[EUR][1000 genomes]
rs10810428	0.85[EUR][1000 genomes]
rs10810431	0.82[EUR][1000 genomes]
rs10810432	0.82[EUR][1000 genomes]
rs10810433	0.82[EUR][1000 genomes]
rs10810434	0.82[EUR][1000 genomes]
rs10810435	0.81[EUR][1000 genomes]
rs10962064	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10962065	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10962066	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10962070	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10962072	0.94[EUR][1000 genomes]
rs10962073	0.93[EUR][1000 genomes]
rs10962098	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962099	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962110	0.90[EUR][1000 genomes]
rs10962124	0.81[EUR][1000 genomes]
rs11789563	0.82[EUR][1000 genomes]
rs11791627	0.80[EUR][1000 genomes]
rs11792937	0.81[EUR][1000 genomes]
rs12340969	0.92[EUR][1000 genomes]
rs13291638	0.91[EUR][1000 genomes]
rs13301516	0.81[EUR][1000 genomes]
rs1396707	0.82[EUR][1000 genomes]
rs1396708	0.81[EUR][1000 genomes]
rs1509310	0.81[EUR][1000 genomes]
rs1533040	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1553728	0.87[EUR][1000 genomes]
rs1812686	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs192466	0.83[EUR][1000 genomes]
rs2055772	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2136355	0.82[EUR][1000 genomes]
rs2175082	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2382532	0.82[EUR][1000 genomes]
rs2382534	0.82[EUR][1000 genomes]
rs2382538	0.80[EUR][1000 genomes]
rs2457265	0.82[ASN][1000 genomes]
rs2663300	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs276444	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs276447	0.86[ASN][1000 genomes]
rs276448	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs276449	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs276453	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs276454	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs276455	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2821545	0.80[EUR][1000 genomes]
rs3119699	0.81[EUR][1000 genomes]
rs3955162	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4281189	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs432452	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs433849	0.81[EUR][1000 genomes]
rs4339736	0.85[EUR][1000 genomes]
rs440229	0.85[EUR][1000 genomes]
rs4448380	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs451878	0.80[EUR][1000 genomes]
rs4740614	0.88[ASN][1000 genomes]
rs4740615	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4740618	0.88[EUR][1000 genomes]
rs4740619	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4740620	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4740621	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4740622	0.82[EUR][1000 genomes]
rs4741510	0.87[EUR][1000 genomes]
rs4741515	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4741517	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4741519	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4741520	0.87[EUR][1000 genomes]
rs4741528	0.90[EUR][1000 genomes]
rs4741529	0.90[EUR][1000 genomes]
rs4741534	0.82[EUR][1000 genomes]
rs6474931	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6474942	0.87[EUR][1000 genomes]
rs6474944	0.87[EUR][1000 genomes]
rs6474945	0.88[EUR][1000 genomes]
rs6474953	0.82[EUR][1000 genomes]
rs6474954	0.82[EUR][1000 genomes]
rs6474955	0.82[EUR][1000 genomes]
rs7020760	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7020983	0.83[EUR][1000 genomes]
rs7024640	0.82[EUR][1000 genomes]
rs7025669	0.90[EUR][1000 genomes]
rs7032755	0.87[EUR][1000 genomes]
rs7032877	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7036172	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7036674	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7042475	0.81[EUR][1000 genomes]
rs7044122	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7049101	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7049176	0.87[EUR][1000 genomes]
rs7389047	0.90[EUR][1000 genomes]
rs7389629	0.84[EUR][1000 genomes]
rs770524	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7847144	0.82[EUR][1000 genomes]
rs7854714	0.85[EUR][1000 genomes]
rs7855235	0.82[EUR][1000 genomes]
rs7859780	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7860623	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7861004	0.80[EUR][1000 genomes]
rs7863088	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7873152	0.89[ASN][1000 genomes]
rs7874533	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7875367	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9407624	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9650677	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9696751	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9886779	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv892629	chr9:15516375-15634326	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv3407839	chr9:15530438-15665653	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv892630	chr9:15554960-15694690	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1034795	chr9:15565670-15595591	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1028357	chr9:15565670-15622556	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv527616	chr9:15574853-15579744	Enhancers Flanking Active TSS Weak transcription Strong transcription	n/a	n/a	inside rSNPs	diseases
10	esv2752286	chr9:15578017-15794897	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15553800-15580600	Weak transcription	Ovary	ovary
2	chr9:15553800-15592600	Weak transcription	Left Ventricle	heart
3	chr9:15554000-15590200	Weak transcription	Fetal Stomach	stomach
4	chr9:15554400-15579400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:15554600-15580800	Weak transcription	Brain Anterior Caudate	brain
6	chr9:15562200-15588200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr9:15562400-15583800	Weak transcription	Thymus	Thymus
8	chr9:15565000-15578800	Weak transcription	Fetal Thymus	thymus
9	chr9:15572400-15580800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:15574600-15580000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr9:15574800-15579400	Strong transcription	Primary hematopoietic stem cells	blood
12	chr9:15576800-15578600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr9:15577000-15578800	Weak transcription	Fetal Lung	lung
14	chr9:15578400-15579200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links