Variant report

Variant	rs73170316
Chromosome Location	chr3:158058456-158058457
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	chr3:158053775..158055865-chr3:158056110..158058613,2	MCF-7	breast:

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10513526	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10936130	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12487397	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12487873	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12487933	0.82[EUR][1000 genomes]
rs12490116	0.90[EUR][1000 genomes]
rs12491983	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12493633	0.90[EUR][1000 genomes]
rs12493753	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12496739	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12497109	0.90[EUR][1000 genomes]
rs12497273	0.90[EUR][1000 genomes]
rs12631828	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12631832	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12634372	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12634405	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12634483	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12634966	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12635395	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12635963	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12637243	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12637436	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12638258	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1435638	0.81[EUR][1000 genomes]
rs1435639	0.81[EUR][1000 genomes]
rs17486183	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17627838	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17683721	0.90[EUR][1000 genomes]
rs17683787	0.90[EUR][1000 genomes]
rs2140982	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2176890	0.89[EUR][1000 genomes]
rs2363654	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28669117	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28781280	0.90[EUR][1000 genomes]
rs4021884	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4432589	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4522814	0.82[EUR][1000 genomes]
rs5025785	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55818809	0.90[EUR][1000 genomes]
rs56019559	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56101139	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56130447	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56303915	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59112782	0.87[EUR][1000 genomes]
rs59661293	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60463398	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60566034	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60921365	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61244743	0.90[EUR][1000 genomes]
rs67074371	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6762774	0.92[EUR][1000 genomes]
rs6769314	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6770005	0.87[EUR][1000 genomes]
rs6804401	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6806720	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73020715	0.89[EUR][1000 genomes]
rs73020720	0.88[EUR][1000 genomes]
rs73166334	0.90[EUR][1000 genomes]
rs73166338	0.90[EUR][1000 genomes]
rs73166343	0.90[EUR][1000 genomes]
rs73166347	0.90[EUR][1000 genomes]
rs73166351	0.89[EUR][1000 genomes]
rs73166352	0.90[EUR][1000 genomes]
rs73166357	0.90[EUR][1000 genomes]
rs73166361	0.88[EUR][1000 genomes]
rs73166362	0.90[EUR][1000 genomes]
rs73166370	0.90[EUR][1000 genomes]
rs73166374	0.90[EUR][1000 genomes]
rs73166375	0.90[EUR][1000 genomes]
rs73166381	0.90[EUR][1000 genomes]
rs73166383	0.90[EUR][1000 genomes]
rs73166386	0.90[EUR][1000 genomes]
rs73166387	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73166388	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73166390	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73166394	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73166397	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73166399	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73168703	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73168704	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73168713	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73168718	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73168720	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73168737	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73170313	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170323	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170340	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170342	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170344	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170358	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73170365	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73170367	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73170369	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73170394	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73170401	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73172109	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73172118	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73172122	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73172127	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7619886	0.87[EUR][1000 genomes]
rs7650062	0.90[EUR][1000 genomes]
rs939115	0.86[EUR][1000 genomes]
rs939116	0.81[EUR][1000 genomes]
rs951113	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9681065	0.88[EUR][1000 genomes]
rs9811282	0.87[EUR][1000 genomes]
rs9812307	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9815348	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9819130	0.83[EUR][1000 genomes]
rs9830994	0.81[EUR][1000 genomes]
rs9849688	0.86[EUR][1000 genomes]
rs9854620	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9858498	0.87[EUR][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	nsv1013391	chr3:157505943-158115553	Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv536775	chr3:157505943-158115553	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv877689	chr3:157858930-158133307	Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158047800-158064800	Weak transcription	Ovary	ovary
2	chr3:158047800-158077800	Weak transcription	Gastric	stomach
3	chr3:158048000-158059800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:158048200-158079400	Weak transcription	Right Ventricle	heart
5	chr3:158052600-158059200	Weak transcription	Lung	lung
6	chr3:158053400-158058800	Weak transcription	Primary B cells from peripheral blood	blood
7	chr3:158054400-158059000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr3:158054800-158058600	Weak transcription	Primary B cells from cord blood	blood
9	chr3:158055000-158077200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:158055200-158086000	Weak transcription	Left Ventricle	heart
11	chr3:158057800-158079600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:158058400-158058800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links