Variant report

Variant	rs4680180
Chromosome Location	chr3:155163375-155163376
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	chr3:155161165..155164024-chr3:155164178..155166734,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10936004	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11709283	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11709568	0.90[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11714606	0.88[ASN][1000 genomes]
rs11715278	0.83[CHB][hapmap]
rs11928089	0.81[CHB][hapmap];0.83[ASN][1000 genomes]
rs12107115	0.95[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs12630784	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12631218	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12633188	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12633236	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12634171	0.99[ASN][1000 genomes]
rs12637360	0.96[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs12696031	0.82[CHB][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs13065559	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs13074373	0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13080233	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13093286	0.87[ASN][1000 genomes]
rs13094738	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13100169	0.82[CHB][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs2351	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2352	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs35259851	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35630673	0.85[ASN][1000 genomes]
rs4679744	0.81[ASN][1000 genomes]
rs4679745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4679746	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4679747	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4680178	0.82[ASN][1000 genomes]
rs4680181	0.99[ASN][1000 genomes]
rs4680182	0.89[ASN][1000 genomes]
rs4680183	0.85[ASN][1000 genomes]
rs4680185	0.91[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs56103965	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6440990	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6440993	0.90[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6440994	0.86[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap]
rs6440995	0.86[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap]
rs6798100	0.91[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs6802079	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6804318	0.95[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs7615026	0.82[CHB][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs7616618	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7616703	0.83[ASN][1000 genomes]
rs7618495	0.86[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7643640	0.91[CEU][hapmap];0.96[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9289955	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9809653	0.89[ASN][1000 genomes]
rs9818939	0.91[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9829532	0.90[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9848852	0.91[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9850280	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9856512	0.91[CEU][hapmap];0.96[CHB][hapmap];0.93[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9869956	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870325	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999994	chr3:154579254-155175303	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv1000753	chr3:154848433-155207022	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv536773	chr3:154848433-155207022	Enhancers Strong transcription Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
4	nsv877679	chr3:155128968-155204939	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr3:155155600-155167400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:155163000-155163400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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