Variant report

Variant	rs12667607
Chromosome Location	chr3:46207905-46207906
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46148102..46150678-chr3:46206152..46208391,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10245418	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10252552	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10259674	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10267370	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10276929	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12666595	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12666825	0.98[ASN][1000 genomes]
rs12666901	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12666955	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12666965	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12668060	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12669011	1.00[AFR][1000 genomes]
rs12669172	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12669656	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12669847	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12669848	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12670016	1.00[AFR][1000 genomes]
rs12670789	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12671882	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12672071	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12672496	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12673004	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3779240	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57415509	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58749439	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58949565	1.00[AFR][1000 genomes]
rs60809075	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60878395	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61019179	1.00[AFR][1000 genomes]
rs6969260	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6974593	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46206200-46208400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:46206200-46211600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:46207200-46215400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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