Variant report

Variant	rs10489393
Chromosome Location	chr1:186455234-186455235
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 186 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:181)

rs_ID	r²[population]
rs10489392	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798042	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798044	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10798045	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10798046	1.00[EUR][1000 genomes]
rs10798047	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10798048	1.00[CEU][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10798049	0.98[EUR][1000 genomes]
rs10911860	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10911861	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911863	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911864	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911866	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911867	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10911868	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911869	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911870	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911872	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911873	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911874	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10911876	1.00[CEU][hapmap]
rs10911878	0.93[CEU][hapmap]
rs10911879	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10911880	0.99[EUR][1000 genomes]
rs10911882	0.98[EUR][1000 genomes]
rs10911883	0.98[EUR][1000 genomes]
rs10911884	0.95[EUR][1000 genomes]
rs10911885	0.96[EUR][1000 genomes]
rs10911886	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes]
rs10911887	0.94[EUR][1000 genomes]
rs10911889	0.93[EUR][1000 genomes]
rs10911904	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10911905	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1119231	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11484607	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11487358	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11576701	0.89[EUR][1000 genomes]
rs11578436	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11578514	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11578546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11583191	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11585033	0.93[EUR][1000 genomes]
rs11585801	0.89[EUR][1000 genomes]
rs11589235	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11589637	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11590457	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12057695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs12061722	0.93[EUR][1000 genomes]
rs12062166	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12062679	0.96[EUR][1000 genomes]
rs12062743	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12071770	0.99[EUR][1000 genomes]
rs12072014	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12076100	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12077211	0.94[EUR][1000 genomes]
rs12078657	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12080265	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12081060	0.99[EUR][1000 genomes]
rs12081510	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12085604	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12085848	1.00[EUR][1000 genomes]
rs12085968	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12089016	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12089127	1.00[EUR][1000 genomes]
rs12089415	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12092372	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12094398	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12096518	0.99[EUR][1000 genomes]
rs12097208	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12401657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12402484	0.96[EUR][1000 genomes]
rs12402766	0.93[EUR][1000 genomes]
rs12402797	0.93[EUR][1000 genomes]
rs12403321	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12404135	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12404145	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12406189	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12406209	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12407957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12408222	1.00[EUR][1000 genomes]
rs12408912	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12409263	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12410237	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12410549	0.93[EUR][1000 genomes]
rs1319120	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1569879	0.93[EUR][1000 genomes]
rs16825452	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825469	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17520924	0.89[EUR][1000 genomes]
rs1882926	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1929095	0.88[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1997977	1.00[EUR][1000 genomes]
rs2038225	0.93[EUR][1000 genomes]
rs20417	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs2066826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2143416	0.86[CEU][hapmap];1.00[CHB][hapmap]
rs2143417	0.86[CEU][hapmap];1.00[CHB][hapmap]
rs2179555	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2207728	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2383385	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2383386	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2383477	0.82[CHB][hapmap]
rs2383504	0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2383505	0.96[EUR][1000 genomes]
rs2383511	0.93[EUR][1000 genomes]
rs2891247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34869216	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34898353	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34975495	0.94[EUR][1000 genomes]
rs35066734	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35999012	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851884	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3851886	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3863719	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3934200	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4007511	0.81[ASN][1000 genomes]
rs4648250	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs4648276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs55812689	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56767915	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57390268	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57468285	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58982724	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59516785	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59665821	0.98[EUR][1000 genomes]
rs60682317	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60982539	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61101909	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6425031	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6425032	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6425033	1.00[EUR][1000 genomes]
rs6669319	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6671561	0.99[EUR][1000 genomes]
rs6672638	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6677885	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6677914	0.89[ASN][1000 genomes]
rs6679923	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66850891	0.94[EUR][1000 genomes]
rs6687784	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6690318	1.00[EUR][1000 genomes]
rs6692629	0.95[EUR][1000 genomes]
rs6698923	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67143595	0.98[EUR][1000 genomes]
rs67203540	1.00[EUR][1000 genomes]
rs67362011	1.00[EUR][1000 genomes]
rs67396678	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67488110	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67588474	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67607835	0.94[EUR][1000 genomes]
rs67744944	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67777998	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs68164021	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72719487	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72719500	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72719501	0.99[EUR][1000 genomes]
rs72721517	0.98[EUR][1000 genomes]
rs72721521	0.94[EUR][1000 genomes]
rs72721544	0.91[EUR][1000 genomes]
rs73048464	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73048477	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73052465	1.00[EUR][1000 genomes]
rs7512750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs7521968	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7522862	0.93[EUR][1000 genomes]
rs7523747	0.99[EUR][1000 genomes]
rs7525586	0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7526069	0.99[EUR][1000 genomes]
rs7534971	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7538407	1.00[EUR][1000 genomes]
rs7542810	0.98[EUR][1000 genomes]
rs7544457	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7545438	0.98[EUR][1000 genomes]
rs7548600	0.93[EUR][1000 genomes]
rs7550585	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7550953	0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7555973	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs765799	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9659276	0.96[EUR][1000 genomes]
rs9804178	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1012164	chr1:186323867-186565995	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	esv2762201	chr1:186323879-186566007	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv527758	chr1:186452071-186456977	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186451000-186455800	Weak transcription	Osteobl	bone
2	chr1:186452200-186467800	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr1:186452400-186455800	Weak transcription	NHEK	skin
4	chr1:186452400-186468400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr1:186452800-186455800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr1:186453200-186461400	Weak transcription	HUVEC	blood vessel
7	chr1:186453200-186461600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:186454800-186456000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr1:186455200-186455600	Weak transcription	Hela-S3	cervix
10	chr1:186455200-186456000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr1:186455200-186457000	Enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links