Variant report

Variant	rs12424709
Chromosome Location	chr12:105664417-105664418
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:105660954..105663749-chr12:105664178..105665747,2	MCF-7	breast:
2	chr12:105653802..105657280-chr12:105663370..105665652,3	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10083185	0.89[EUR][1000 genomes]
rs10161513	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10861369	0.87[CEU][hapmap]
rs11112381	0.89[EUR][1000 genomes]
rs11112389	0.88[EUR][1000 genomes]
rs11112410	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112452	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11112522	1.00[ASN][1000 genomes]
rs11112526	1.00[ASN][1000 genomes]
rs11112530	1.00[ASN][1000 genomes]
rs11112531	1.00[ASN][1000 genomes]
rs11112532	1.00[ASN][1000 genomes]
rs11559871	0.96[EUR][1000 genomes]
rs11829598	0.89[EUR][1000 genomes]
rs12299366	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12299391	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12301914	0.87[CEU][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12304384	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12305766	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12307372	0.87[EUR][1000 genomes]
rs12308444	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12311156	0.87[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12312965	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs12317637	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12317804	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12321199	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12321518	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12321534	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12424095	1.00[ASN][1000 genomes]
rs12424191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12425803	0.89[EUR][1000 genomes]
rs17037098	1.00[ASN][1000 genomes]
rs56284118	0.89[EUR][1000 genomes]
rs56862143	0.89[EUR][1000 genomes]
rs58780154	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59320697	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59593474	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60835294	0.89[EUR][1000 genomes]
rs60999193	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7132816	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7133728	0.87[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7136270	1.00[ASN][1000 genomes]
rs7136306	1.00[ASN][1000 genomes]
rs7136453	0.89[EUR][1000 genomes]
rs7138574	0.87[EUR][1000 genomes]
rs7300130	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7302842	0.87[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7305406	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7306679	1.00[ASN][1000 genomes]
rs7313309	0.89[EUR][1000 genomes]
rs7315964	0.89[EUR][1000 genomes]
rs73179990	0.89[EUR][1000 genomes]
rs73179996	0.89[EUR][1000 genomes]
rs73179998	0.89[EUR][1000 genomes]
rs73180001	0.89[EUR][1000 genomes]
rs73181810	1.00[ASN][1000 genomes]
rs73181818	1.00[ASN][1000 genomes]
rs73181822	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181825	1.00[ASN][1000 genomes]
rs73181843	1.00[ASN][1000 genomes]
rs73181852	1.00[ASN][1000 genomes]
rs73181856	1.00[ASN][1000 genomes]
rs73181857	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181860	0.84[AMR][1000 genomes]
rs73181869	1.00[ASN][1000 genomes]
rs7964184	0.89[EUR][1000 genomes]
rs7971630	0.87[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975115	1.00[ASN][1000 genomes]
rs7975787	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs7978034	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9971795	1.00[ASN][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	nsv899499	chr12:105616297-105722529	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:105659600-105672200	Weak transcription	Aorta	Aorta
2	chr12:105661800-105668400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr12:105662800-105665000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr12:105662800-105665600	Enhancers	NHDF-Ad	bronchial
5	chr12:105663000-105665000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr12:105663200-105665400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr12:105663400-105665800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr12:105663600-105664800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr12:105663800-105665200	Enhancers	Placenta Amnion	Placenta Amnion
10	chr12:105664000-105666200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr12:105664200-105664600	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr12:105664200-105665200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr12:105664400-105664600	Enhancers	HSMM	muscle
14	chr12:105664400-105664800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr12:105664400-105664800	Weak transcription	Osteobl	bone
16	chr12:105664400-105665800	Weak transcription	NHEK	skin

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