Variant report

Variant	rs12662661
Chromosome Location	chr6:75574046-75574047
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs12661592	0.80[ASN][1000 genomes]
rs12663829	0.88[ASN][1000 genomes]
rs12664513	0.80[ASN][1000 genomes]
rs12664807	0.80[ASN][1000 genomes]
rs12664984	0.80[ASN][1000 genomes]
rs12665297	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12665702	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12665801	0.80[ASN][1000 genomes]
rs13437111	1.00[CEU][hapmap]
rs16885835	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.88[ASN][1000 genomes]
rs16885844	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs16885865	0.81[ASN][1000 genomes]
rs16885904	0.80[ASN][1000 genomes]
rs16885908	0.80[ASN][1000 genomes]
rs16885914	0.80[ASN][1000 genomes]
rs16885916	0.80[ASN][1000 genomes]
rs2210974	0.82[AFR][1000 genomes]
rs2353249	0.80[ASN][1000 genomes]
rs2883118	1.00[CEU][hapmap];0.81[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap]
rs35129971	0.80[ASN][1000 genomes]
rs35835665	0.80[ASN][1000 genomes]
rs35871031	0.80[ASN][1000 genomes]
rs4085727	0.80[ASN][1000 genomes]
rs4085729	0.81[ASN][1000 genomes]
rs4085730	0.81[ASN][1000 genomes]
rs4085731	0.80[ASN][1000 genomes]
rs4112825	0.81[ASN][1000 genomes]
rs4112826	0.81[ASN][1000 genomes]
rs4388259	1.00[CEU][hapmap];0.81[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs5023496	1.00[CEU][hapmap]
rs57183891	0.80[ASN][1000 genomes]
rs57290574	0.80[ASN][1000 genomes]
rs57560334	0.80[ASN][1000 genomes]
rs58699375	0.80[ASN][1000 genomes]
rs59041629	0.80[ASN][1000 genomes]
rs59051124	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs59154474	0.80[ASN][1000 genomes]
rs59848727	0.80[ASN][1000 genomes]
rs60108944	0.80[ASN][1000 genomes]
rs60356008	0.80[ASN][1000 genomes]
rs61612838	0.80[ASN][1000 genomes]
rs6453790	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6453795	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6910855	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6913409	0.82[AFR][1000 genomes]
rs6917149	0.80[ASN][1000 genomes]
rs6929192	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6932000	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.86[MEX][hapmap]
rs6932942	0.80[ASN][1000 genomes]
rs6934193	0.82[AFR][1000 genomes]
rs6935326	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6939666	0.82[AFR][1000 genomes]
rs73458044	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73458047	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7738809	1.00[CEU][hapmap]
rs7741832	0.80[AFR][1000 genomes]
rs7743883	1.00[CEU][hapmap];0.83[MKK][hapmap]
rs7746348	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7746528	0.82[AFR][1000 genomes]
rs7747261	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7749000	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7749133	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7754400	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs7755906	1.00[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.91[MKK][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7757844	0.82[AFR][1000 genomes]
rs7762264	0.82[AFR][1000 genomes]
rs7772503	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs7775765	1.00[CEU][hapmap];0.81[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.85[MEX][hapmap]
rs7776027	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs9293988	1.00[CEU][hapmap]
rs9443088	0.82[AFR][1000 genomes]
rs9443091	0.81[AFR][1000 genomes]
rs9443092	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9443095	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9443096	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9443100	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9443104	1.00[EUR][1000 genomes]
rs9447317	1.00[CEU][hapmap]
rs9447330	0.82[AFR][1000 genomes]
rs9447335	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9447337	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9447339	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9447343	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9447370	1.00[CEU][hapmap];0.81[CHB][hapmap];0.90[CHD][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.80[ASN][1000 genomes]
rs9447371	0.80[ASN][1000 genomes]
rs9447374	0.80[ASN][1000 genomes]
rs9447376	0.80[ASN][1000 genomes]
rs9447377	0.80[ASN][1000 genomes]
rs9447378	0.80[ASN][1000 genomes]
rs9447379	0.80[ASN][1000 genomes]
rs9447380	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520746	chr6:75211546-75691814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv917283	chr6:75234428-75641440	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv830695	chr6:75409656-75583115	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886169	chr6:75432861-75610722	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv886170	chr6:75477971-75577359	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv2757179	chr6:75525739-75625251	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv2759443	chr6:75525739-75625251	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv886171	chr6:75527856-75577359	Enhancers Weak transcription Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv886172	chr6:75527856-75600804	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv886173	chr6:75527856-75610722	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv886174	chr6:75536940-75577359	Weak transcription Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv886175	chr6:75536940-75610722	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv830696	chr6:75538316-75734609	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv886176	chr6:75539434-75577359	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv886177	chr6:75539434-75600804	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv886178	chr6:75539434-75610722	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	nsv603760	chr6:75542717-75583386	Weak transcription Enhancers ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv603761	chr6:75542717-75600804	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
19	nsv886179	chr6:75551717-75600804	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
20	nsv886180	chr6:75551717-75610722	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:75571000-75577000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr6:75572400-75575400	Enhancers	Ovary	ovary

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