Variant report

Variant	rs1829009
Chromosome Location	chr12:20932399-20932400
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1002441	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10444412	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10770714	0.80[EUR][1000 genomes]
rs10770715	0.80[EUR][1000 genomes]
rs10841604	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10841605	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10841606	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10841607	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10841608	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10841609	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10841610	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10841611	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10841612	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10841613	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10841615	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10841616	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11045426	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045428	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045429	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045430	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045432	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045435	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045437	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11045439	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11045440	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11045441	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11045446	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11045447	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11045448	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11045458	0.98[ASN][1000 genomes]
rs11045459	0.98[ASN][1000 genomes]
rs11045460	0.98[ASN][1000 genomes]
rs11045477	0.98[ASN][1000 genomes]
rs11045497	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11045501	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11045503	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11494694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11519052	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11519054	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12368368	0.80[EUR][1000 genomes]
rs12368841	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12371796	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12371798	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12423980	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12810927	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12818167	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12818525	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12819311	0.87[ASN][1000 genomes]
rs12821686	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1399932	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1399940	0.80[EUR][1000 genomes]
rs1515765	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554145	0.81[ASN][1000 genomes]
rs1554146	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554147	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554148	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554149	0.81[ASN][1000 genomes]
rs1554151	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554152	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554153	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1588918	0.98[ASN][1000 genomes]
rs17326431	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17326468	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1829003	0.80[EUR][1000 genomes]
rs1973662	0.81[ASN][1000 genomes]
rs2099368	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2138332	0.80[EUR][1000 genomes]
rs2271656	0.80[EUR][1000 genomes]
rs2417863	0.81[ASN][1000 genomes]
rs2417864	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2900456	0.83[ASN][1000 genomes]
rs35508637	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35962288	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4141474	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs4293173	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4340099	0.84[ASN][1000 genomes]
rs4387400	0.81[ASN][1000 genomes]
rs4468396	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4531518	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4581503	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4762670	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4762772	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4762773	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4762774	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4762777	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4762778	0.87[ASN][1000 genomes]
rs4762780	0.98[ASN][1000 genomes]
rs4762781	0.98[ASN][1000 genomes]
rs4762784	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56767862	0.81[ASN][1000 genomes]
rs61921585	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6487137	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6487138	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6487139	0.87[ASN][1000 genomes]
rs7137980	0.81[ASN][1000 genomes]
rs7295297	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7297868	0.93[ASN][1000 genomes]
rs7311073	0.80[EUR][1000 genomes]
rs7311098	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7311295	0.98[ASN][1000 genomes]
rs7311533	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7967660	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7969555	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7980844	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs953001	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs953002	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs957164	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9669084	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs972505	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs972506	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs972507	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs974039	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs974040	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs974041	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043890	chr12:20659151-21309993	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv541410	chr12:20659151-21309993	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1054997	chr12:20682009-21292602	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1039951	chr12:20880417-20941238	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv17347	chr12:20892854-21029179	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1051454	chr12:20893994-20999635	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1040033	chr12:20914439-21078855	Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv869995	chr12:20929531-21081863	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	esv3329322	chr12:20930526-20937024	Enhancers	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20931400-20933000	Enhancers	Liver	Liver
2	chr12:20931800-20932400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links