Variant report

Variant	rs12336799
Chromosome Location	chr9:94405031-94405032
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	chr9:94404695..94405472-chr9:94421862..94422848,3	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10116525	0.83[ASN][1000 genomes]
rs1021439	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1021442	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10992020	0.84[AFR][1000 genomes]
rs10992025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992026	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12003010	0.83[ASN][1000 genomes]
rs12115281	1.00[CHB][hapmap]
rs12336839	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12337695	0.86[AFR][1000 genomes]
rs12340405	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12340758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12340837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12343525	0.86[AFR][1000 genomes]
rs12348938	0.83[ASN][1000 genomes]
rs13440204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1492681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1492682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2076773	1.00[CHB][hapmap]
rs4379560	0.87[AFR][1000 genomes]
rs4743843	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4743847	1.00[CHB][hapmap]
rs4743849	1.00[CHB][hapmap]
rs4744081	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744091	1.00[CHB][hapmap]
rs58483310	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60690708	0.83[ASN][1000 genomes]
rs6479368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs67539705	0.83[ASN][1000 genomes]
rs7034655	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7847068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7859795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7864037	1.00[CEU][hapmap]
rs7873442	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7874272	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9299394	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9696915	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045332	chr9:94352661-94656016	Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1047426	chr9:94363211-94758114	Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv531631	chr9:94373847-94633213	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv516473	chr9:94396059-94405452	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
5	nsv818713	chr9:94396059-94406084	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 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	chr9:94403800-94406000	Enhancers	Placenta Amnion	Placenta Amnion
2	chr9:94404800-94405400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:94405000-94406000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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