Variant report

Variant	rs9874547
Chromosome Location	chr3:51881919-51881920
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	chr3:51873591..51876506-chr3:51881847..51884185,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs12639503	0.89[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs1587922	0.89[JPT][hapmap]
rs1605069	0.89[JPT][hapmap]
rs1605070	0.89[JPT][hapmap]
rs1983106	0.89[JPT][hapmap]
rs2007607	0.89[JPT][hapmap]
rs2102297	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28481670	0.84[AFR][1000 genomes]
rs28776255	0.82[EUR][1000 genomes]
rs28799908	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28854335	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs28874597	0.82[EUR][1000 genomes]
rs4280629	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4295162	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4687602	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55668803	0.81[EUR][1000 genomes]
rs56204016	0.83[AFR][1000 genomes]
rs58932899	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61048512	0.84[EUR][1000 genomes]
rs6446041	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6762083	0.89[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs6762371	0.89[JPT][hapmap];0.97[YRI][hapmap]
rs6763197	0.89[JPT][hapmap]
rs6768073	0.84[AFR][1000 genomes]
rs6786848	0.86[JPT][hapmap]
rs6789601	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6795223	0.89[JPT][hapmap]
rs6798175	0.84[AFR][1000 genomes]
rs6798914	0.82[JPT][hapmap]
rs6802583	0.89[JPT][hapmap];1.00[YRI][hapmap]
rs6805324	0.89[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs6805941	0.84[AFR][1000 genomes]
rs6809548	0.84[AFR][1000 genomes]
rs7615151	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7623760	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7629080	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7635409	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7639080	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7644969	0.89[JPT][hapmap]
rs975258	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs9826967	0.89[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs9828077	0.84[AFR][1000 genomes]
rs9831886	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9839703	0.82[EUR][1000 genomes]
rs9840833	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9846102	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs9853511	0.89[JPT][hapmap];1.00[YRI][hapmap]
rs9856180	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs9856660	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9857964	0.83[AFR][1000 genomes]
rs986539	0.89[JPT][hapmap]
rs9866552	0.89[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs9867269	0.82[EUR][1000 genomes]
rs9867413	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9869265	0.87[AFR][1000 genomes]
rs9874046	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9875459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9876690	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9880628	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer 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	53 gene(s)	inside rSNPs	diseases
2	nsv520211	chr3:51772347-52166147	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	esv3416846	chr3:51781117-51888179	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1012847	chr3:51811062-52056727	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
5	nsv536571	chr3:51811062-52056727	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
6	nsv1001350	chr3:51860817-51899966	Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 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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