Variant report

Variant	rs7643859
Chromosome Location	chr3:46675486-46675487
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	chr3:46675056..46675850-chr3:46708207..46708731,2	MCF-7	breast:
2	chr3:46670811..46674020-chr3:46675061..46678300,4	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11130099	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11130102	0.83[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs11719679	0.94[CHB][hapmap];0.84[JPT][hapmap];0.86[ASN][1000 genomes]
rs11922418	0.91[ASN][1000 genomes]
rs12491236	0.89[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs12491294	0.89[CHB][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs13083665	0.91[ASN][1000 genomes]
rs1356875	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1402148	0.88[ASN][1000 genomes]
rs1520487	0.82[EUR][1000 genomes]
rs1520488	0.88[ASN][1000 genomes]
rs1520489	0.88[ASN][1000 genomes]
rs1581325	0.83[ASN][1000 genomes]
rs1607737	0.86[ASN][1000 genomes]
rs34000414	0.83[ASN][1000 genomes]
rs34063921	0.83[ASN][1000 genomes]
rs4234464	0.89[ASN][1000 genomes]
rs4683253	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4683256	0.86[ASN][1000 genomes]
rs4683260	0.83[CHB][hapmap]
rs4683271	0.86[ASN][1000 genomes]
rs6442011	0.84[ASN][1000 genomes]
rs6442012	0.86[ASN][1000 genomes]
rs6773430	0.85[CEU][hapmap];0.89[CHB][hapmap];0.88[JPT][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6805749	0.82[EUR][1000 genomes]
rs6808214	0.86[ASN][1000 genomes]
rs7373994	0.89[CHB][hapmap];0.82[ASN][1000 genomes]
rs7610008	0.82[EUR][1000 genomes]
rs7644072	0.82[ASN][1000 genomes]
rs877680	0.89[CHB][hapmap]
rs877681	0.89[CHB][hapmap]
rs950190	0.86[ASN][1000 genomes]
rs9845998	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv876738	chr3:46639048-46680063	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
4	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv876739	chr3:46656980-46744966	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv876740	chr3:46656980-46748453	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	nsv876741	chr3:46663372-46763839	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46672000-46675600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:46672000-46675800	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr3:46672000-46676000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr3:46672000-46677200	Weak transcription	Fetal Brain Female	brain
5	chr3:46672000-46677600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:46672000-46681600	Weak transcription	Left Ventricle	heart
7	chr3:46672200-46676000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr3:46672400-46676400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:46673600-46675600	Enhancers	Adipose Nuclei	Adipose
10	chr3:46674800-46675600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:46674800-46676400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:46675000-46675600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:46675000-46676400	Weak transcription	Liver	Liver
14	chr3:46675200-46677600	Enhancers	Spleen	Spleen
15	chr3:46675200-46677600	Enhancers	Dnd41	blood
16	chr3:46675400-46675600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:46675400-46676800	Enhancers	Primary T cells from cord blood	blood
18	chr3:46675400-46677000	Enhancers	Fetal Thymus	thymus

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