Variant report

Variant	rs12479163
Chromosome Location	chr2:141033205-141033206
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	chr2:141030971..141033718-chr2:141035593..141037981,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10195473	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10469558	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap]
rs10469593	0.96[MEX][hapmap]
rs10496839	0.93[CHB][hapmap];0.95[CHD][hapmap];0.94[JPT][hapmap]
rs10496840	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.92[TSI][hapmap]
rs10928746	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12464830	0.94[JPT][hapmap]
rs12476338	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12477489	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12612910	0.94[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12616889	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13010738	0.94[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap]
rs13021003	0.93[CHB][hapmap];0.87[MEX][hapmap]
rs13413773	1.00[CHB][hapmap];0.89[YRI][hapmap]
rs13424233	0.94[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap]
rs1386356	1.00[CHB][hapmap]
rs1388809	0.94[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.83[YRI][hapmap]
rs1486961	0.89[CEU][hapmap]
rs1486963	0.94[CEU][hapmap];0.93[CHB][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.85[TSI][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs1492393	0.87[CHB][hapmap];0.92[CHD][hapmap];0.87[MEX][hapmap]
rs1518441	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1532001	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2029628	0.94[CEU][hapmap]
rs2171322	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs2839772	0.91[MEX][hapmap]
rs55945474	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs598786	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap]
rs607494	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62171603	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs654051	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6717281	0.94[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap]
rs6755822	0.94[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs7340225	0.94[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs7567150	0.94[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs7581796	0.96[MEX][hapmap]
rs982233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834392	chr2:140920900-141086613	Flanking Active TSS Weak transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv431757	chr2:140931289-141098020	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	esv2754266	chr2:141023643-141270786	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 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	chr2:141032600-141033400	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr2:141033200-141033400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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