Variant report

Variant	rs6488156
Chromosome Location	chr12:33520079-33520080
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:33513997..33516568-chr12:33519411..33521464,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251863	Chromatin interaction

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10466764	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10772078	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10772080	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10772081	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10772082	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10772084	0.87[ASN][1000 genomes]
rs10844558	0.95[ASN][1000 genomes]
rs10844566	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844567	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844568	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844570	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844571	0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844572	1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844591	0.82[ASN][1000 genomes]
rs10844592	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844593	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844594	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844595	0.87[ASN][1000 genomes]
rs10844596	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844598	0.87[ASN][1000 genomes]
rs10844599	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844600	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs10844601	0.87[ASN][1000 genomes]
rs10844602	0.87[ASN][1000 genomes]
rs10844603	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844604	0.87[ASN][1000 genomes]
rs10844605	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10844606	0.87[ASN][1000 genomes]
rs10844608	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs11052630	0.93[ASN][1000 genomes]
rs11052637	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11052649	0.89[CEU][hapmap];1.00[CHB][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052657	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11052659	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11052663	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11052669	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11052677	1.00[CHB][hapmap]
rs11052684	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11052690	0.87[ASN][1000 genomes]
rs11052694	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs11052695	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs11052696	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs11052697	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs11052698	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs11052703	0.87[ASN][1000 genomes]
rs12227590	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12299895	1.00[CHB][hapmap]
rs12302300	0.95[ASN][1000 genomes]
rs12318039	0.87[ASN][1000 genomes]
rs12321972	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs12322653	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs1482990	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs16916410	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs16921002	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs16921021	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs1905426	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1947969	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1994166	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs1994167	0.87[ASN][1000 genomes]
rs2389198	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs35020525	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4931716	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56161708	0.87[ASN][1000 genomes]
rs59499949	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60021869	0.83[ASN][1000 genomes]
rs60061814	0.82[ASN][1000 genomes]
rs60231799	0.87[ASN][1000 genomes]
rs61041826	0.87[ASN][1000 genomes]
rs6488154	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6488155	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7134644	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7134904	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7297379	0.84[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[YRI][hapmap]
rs7298158	0.87[ASN][1000 genomes]
rs7298385	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs7298455	0.95[ASN][1000 genomes]
rs7302123	0.87[ASN][1000 genomes]
rs7309592	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73313956	0.87[ASN][1000 genomes]
rs7970433	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7973722	1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7973728	0.94[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7974936	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs9888364	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9888374	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9888427	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037459	chr12:33310703-33905662	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv541459	chr12:33310703-33905662	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv832368	chr12:33368962-33588498	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1035988	chr12:33399053-33699363	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv558247	chr12:33481504-34245756	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
6	nsv1050885	chr12:33507661-33568938	Strong transcription Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv541460	chr12:33507661-33568938	Strong transcription Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1037735	chr12:33510115-34457196	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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