Variant report

Variant	rs12495959
Chromosome Location	chr3:139613915-139613916
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:139578912..139580848-chr3:139612319..139614014,2	MCF-7	breast:
2	chr3:139611966..139613962-chr3:139618944..139620589,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10935361	0.88[ASN][1000 genomes]
rs11707263	0.91[ASN][1000 genomes]
rs13063473	0.88[ASN][1000 genomes]
rs13075026	0.88[ASN][1000 genomes]
rs13085522	0.88[ASN][1000 genomes]
rs1834504	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1895858	0.80[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2059572	0.91[ASN][1000 genomes]
rs28413505	0.88[ASN][1000 genomes]
rs35556479	0.88[ASN][1000 genomes]
rs56370145	0.88[ASN][1000 genomes]
rs6439885	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs67605525	0.91[ASN][1000 genomes]
rs959555	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs976108	0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs9815926	0.80[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs9821843	0.80[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs983323	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9850110	0.88[ASN][1000 genomes]
rs9850149	0.88[ASN][1000 genomes]
rs9869519	0.84[CHD][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9878008	0.80[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][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	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv530058	chr3:139243971-139814419	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139610200-139614000	Enhancers	Adipose Nuclei	Adipose
2	chr3:139610600-139614400	Enhancers	Ovary	ovary
3	chr3:139612000-139614000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:139612600-139614000	Enhancers	Fetal Brain Male	brain
5	chr3:139612800-139614000	Enhancers	Right Atrium	heart
6	chr3:139613200-139614000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:139613600-139614400	Enhancers	Pancreas	Pancrea

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