Variant report

Variant	rs16976847
Chromosome Location	chr15:56578164-56578165
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56537952..56538487-chr15:56578149..56578660,2	MCF-7	breast:
2	chr15:56534615..56536116-chr15:56577645..56579684,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RFX7-1	chr15:56578130-56578226	ucscGeneNc_uc002afb_1

Variant related genes	Relation type
ENSG00000181827	Chromatin interaction

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:133)

rs_ID	r²[population]
rs1031077	0.89[CHB][hapmap];1.00[YRI][hapmap]
rs10518839	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs10518842	0.82[AFR][1000 genomes]
rs10518843	0.95[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10851604	0.82[AFR][1000 genomes]
rs11071246	0.84[AFR][1000 genomes]
rs11071253	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs11071255	0.82[AFR][1000 genomes]
rs11071265	0.81[ASN][1000 genomes]
rs11629674	0.95[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs11629809	0.82[AFR][1000 genomes]
rs11630394	0.82[AFR][1000 genomes]
rs11631518	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs11631910	0.82[AFR][1000 genomes]
rs11631915	0.82[AFR][1000 genomes]
rs11632081	0.82[AFR][1000 genomes]
rs11632087	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11632091	0.95[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs11632394	0.82[AFR][1000 genomes]
rs11632619	0.82[AFR][1000 genomes]
rs11634404	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs11634689	0.82[AFR][1000 genomes]
rs11636040	0.84[CHB][hapmap];1.00[YRI][hapmap]
rs11637515	0.82[AFR][1000 genomes]
rs11637789	0.95[CHB][hapmap];0.87[YRI][hapmap]
rs11637998	0.82[AFR][1000 genomes]
rs11638709	0.82[AFR][1000 genomes]
rs12437864	0.95[CHB][hapmap];0.87[YRI][hapmap]
rs12439682	0.95[CHB][hapmap]
rs12439907	0.85[CHB][hapmap];0.87[YRI][hapmap]
rs12442539	0.95[CHB][hapmap];0.80[JPT][hapmap]
rs12443042	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs12443429	0.95[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap]
rs12591236	0.82[AFR][1000 genomes]
rs12591303	0.90[CHB][hapmap];0.85[YRI][hapmap]
rs12591980	0.82[AFR][1000 genomes]
rs12592096	0.95[CHB][hapmap];0.82[JPT][hapmap];0.83[YRI][hapmap]
rs12592881	0.82[AFR][1000 genomes]
rs12592899	0.82[AFR][1000 genomes]
rs12593348	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12593439	0.82[AFR][1000 genomes]
rs12593453	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12593569	0.90[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs12593713	0.82[AFR][1000 genomes]
rs12594038	0.82[AFR][1000 genomes]
rs12594245	0.82[AFR][1000 genomes]
rs12594908	0.82[AFR][1000 genomes]
rs12594941	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12595072	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs12595490	0.82[AFR][1000 genomes]
rs12595496	0.82[AFR][1000 genomes]
rs12595557	0.95[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs12595649	0.82[AFR][1000 genomes]
rs12595690	0.82[AFR][1000 genomes]
rs12595840	0.95[CHB][hapmap];0.87[YRI][hapmap]
rs1402173	1.00[CHB][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs1426065	0.81[ASN][1000 genomes]
rs1550586	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs16976734	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs16976760	0.86[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap]
rs16976788	0.95[CHB][hapmap];0.87[YRI][hapmap]
rs16976821	0.82[AFR][1000 genomes]
rs16976831	0.82[AFR][1000 genomes]
rs16976832	0.82[AFR][1000 genomes]
rs16976919	0.84[CHB][hapmap];0.85[YRI][hapmap]
rs1863427	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1867089	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs1879344	0.95[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs1879347	0.95[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap]
rs1879348	0.95[CHB][hapmap]
rs1879349	0.95[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs2162216	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs2263567	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2414465	0.82[AFR][1000 genomes]
rs2414467	0.82[AFR][1000 genomes]
rs2414468	0.82[AFR][1000 genomes]
rs2414471	0.82[AFR][1000 genomes]
rs2414472	0.82[AFR][1000 genomes]
rs2554286	0.88[EUR][1000 genomes]
rs2682045	0.86[CHB][hapmap]
rs2713903	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2718906	0.85[ASN][1000 genomes]
rs2899596	0.82[AFR][1000 genomes]
rs2899597	0.82[AFR][1000 genomes]
rs34431355	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35607436	0.82[AFR][1000 genomes]
rs3759868	0.85[CHB][hapmap]
rs4142479	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4363812	0.85[CHB][hapmap];0.87[YRI][hapmap]
rs55942364	0.82[AFR][1000 genomes]
rs55957636	0.82[AFR][1000 genomes]
rs56083605	0.82[AFR][1000 genomes]
rs56215018	0.82[AFR][1000 genomes]
rs56398703	0.82[AFR][1000 genomes]
rs58851049	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58934221	0.82[AFR][1000 genomes]
rs59232912	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60210425	0.82[AFR][1000 genomes]
rs60861096	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61072507	0.82[AFR][1000 genomes]
rs66670902	0.82[AFR][1000 genomes]
rs68187092	0.82[AFR][1000 genomes]
rs7177904	0.95[CHB][hapmap];0.85[JPT][hapmap]
rs72738654	0.83[AFR][1000 genomes]
rs72738656	0.82[AFR][1000 genomes]
rs72738658	0.82[AFR][1000 genomes]
rs72738659	0.82[AFR][1000 genomes]
rs72738660	0.82[AFR][1000 genomes]
rs72738662	0.82[AFR][1000 genomes]
rs72738664	0.82[AFR][1000 genomes]
rs72738666	0.82[AFR][1000 genomes]
rs72738668	0.82[AFR][1000 genomes]
rs72738674	0.82[AFR][1000 genomes]
rs72738675	0.82[AFR][1000 genomes]
rs72738676	0.82[AFR][1000 genomes]
rs72738680	0.82[AFR][1000 genomes]
rs72738682	0.82[AFR][1000 genomes]
rs72738683	0.82[AFR][1000 genomes]
rs72738684	0.82[AFR][1000 genomes]
rs72738685	0.82[AFR][1000 genomes]
rs72738686	0.82[AFR][1000 genomes]
rs72738694	0.82[AFR][1000 genomes]
rs72738697	0.82[AFR][1000 genomes]
rs72738701	0.82[AFR][1000 genomes]
rs72740503	0.82[AFR][1000 genomes]
rs72740506	0.82[AFR][1000 genomes]
rs72740508	0.82[AFR][1000 genomes]
rs72740509	0.82[AFR][1000 genomes]
rs72740514	0.82[AFR][1000 genomes]
rs748970	0.86[CHB][hapmap]
rs764014	0.95[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs8023554	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs8030605	0.82[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833019	chr15:56486029-56649933	Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 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	chr15:56577400-56579000	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr15:56577600-56578600	Weak transcription	Placenta	Placenta

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