Variant report

Variant	rs12643395
Chromosome Location	chr4:173580650-173580651
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 122 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:115)

rs_ID	r²[population]
rs10016145	0.89[JPT][hapmap]
rs10024969	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10025150	0.84[JPT][hapmap]
rs10025544	0.84[JPT][hapmap]
rs10031656	0.84[JPT][hapmap]
rs10034993	0.84[JPT][hapmap]
rs10520242	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10866363	0.82[JPT][hapmap]
rs11132954	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs11132955	1.00[JPT][hapmap]
rs11132959	0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs11132964	0.82[JPT][hapmap]
rs11132967	0.82[JPT][hapmap]
rs11132968	0.84[JPT][hapmap]
rs11132970	0.84[JPT][hapmap]
rs1158684	0.83[JPT][hapmap]
rs11932974	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs11942645	0.82[JPT][hapmap]
rs12498347	0.83[JPT][hapmap]
rs12499966	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12501554	0.84[JPT][hapmap]
rs12502034	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12502278	0.80[CEU][hapmap]
rs12502339	0.84[JPT][hapmap]
rs12505471	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12509227	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12510770	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12510844	0.90[EUR][1000 genomes]
rs12511707	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12511715	0.90[CEU][hapmap];0.90[EUR][1000 genomes]
rs12513314	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs12643742	0.84[JPT][hapmap]
rs12643816	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12645440	1.00[CEU][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12646897	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs12647340	0.84[JPT][hapmap]
rs12649426	0.84[JPT][hapmap]
rs12651320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13144747	0.84[JPT][hapmap]
rs13146563	0.85[JPT][hapmap]
rs1347698	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs1347700	0.84[JPT][hapmap]
rs1347702	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1347705	0.83[JPT][hapmap]
rs1437828	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1437834	0.81[JPT][hapmap]
rs1437840	0.90[CEU][hapmap];0.85[CHB][hapmap];0.90[EUR][1000 genomes]
rs1437842	0.84[JPT][hapmap]
rs1455130	0.80[CEU][hapmap]
rs1540466	0.86[CHB][hapmap]
rs1540468	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1540471	0.90[CEU][hapmap];0.80[CHB][hapmap]
rs1540472	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1551664	0.80[CEU][hapmap]
rs1551665	0.80[CEU][hapmap]
rs17058683	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17058705	0.90[CEU][hapmap];0.90[CHB][hapmap];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17058736	0.90[CEU][hapmap];0.95[CHB][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17058752	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs17058802	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs17058876	0.82[JPT][hapmap]
rs17058882	0.89[CEU][hapmap]
rs17058886	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs17308839	0.80[JPT][hapmap]
rs17308944	0.85[JPT][hapmap]
rs180146	0.90[CEU][hapmap]
rs1898554	0.85[JPT][hapmap]
rs1946797	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2043781	0.89[CEU][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2043782	0.84[JPT][hapmap]
rs2118439	0.80[JPT][hapmap]
rs2118441	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35640087	0.85[CHB][hapmap]
rs36081927	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4522845	0.90[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4569731	0.86[CHB][hapmap]
rs4608790	0.82[JPT][hapmap]
rs4695771	0.84[JPT][hapmap]
rs4695932	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4695991	0.90[EUR][1000 genomes]
rs4696006	0.80[JPT][hapmap]
rs4696014	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4696032	0.80[CEU][hapmap]
rs58774009	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61077359	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62329189	0.81[AMR][1000 genomes]
rs62330792	0.90[EUR][1000 genomes]
rs62330815	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62330816	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62330818	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62330819	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62330820	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6553657	0.84[JPT][hapmap]
rs6812449	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6817631	0.82[JPT][hapmap]
rs6819460	0.82[JPT][hapmap]
rs6821734	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6822579	0.84[EUR][1000 genomes]
rs6827154	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs6838201	0.91[EUR][1000 genomes]
rs6842805	0.82[JPT][hapmap]
rs6844200	1.00[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap]
rs7376615	0.84[JPT][hapmap]
rs7378115	0.84[JPT][hapmap]
rs7438724	0.94[JPT][hapmap]
rs747493	0.90[CEU][hapmap];0.85[CHB][hapmap];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs748347	0.85[JPT][hapmap]
rs7659511	0.84[JPT][hapmap]
rs7664183	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7688630	0.84[JPT][hapmap]
rs7694886	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs837196	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9312527	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs9992822	0.84[JPT][hapmap]
rs9997085	0.82[JPT][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	nsv1031592	chr4:173112542-173662991	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv537359	chr4:173112542-173662991	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv534293	chr4:173121379-173606082	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv880685	chr4:173562564-173661711	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv880613	chr4:173569281-173661711	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173577600-173581400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:173578200-173581400	Weak transcription	Adipose Nuclei	Adipose
3	chr4:173578400-173580800	Weak transcription	Fetal Intestine Small	intestine
4	chr4:173578400-173586200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr4:173579000-173580800	Weak transcription	Fetal Intestine Large	intestine

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