Variant report

Variant	rs6784166
Chromosome Location	chr3:50579050-50579051
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:50392345..50395062-chr3:50577174..50579262,2	K562	blood:
2	chr3:50477103..50478834-chr3:50577541..50580324,2	MCF-7	breast:
3	chr3:50574744..50576810-chr3:50578227..50580439,2	K562	blood:
4	chr3:50407190..50409972-chr3:50577719..50580221,2	K562	blood:
5	chr3:50578851..50581220-chr3:50589353..50591670,3	MCF-7	breast:

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs1034405	0.94[CEU][hapmap];0.94[EUR][1000 genomes]
rs11130252	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11719998	0.88[EUR][1000 genomes]
rs12490042	0.84[CEU][hapmap]
rs12491425	0.90[EUR][1000 genomes]
rs12493985	0.83[EUR][1000 genomes]
rs129310	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs13076850	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13083004	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13084476	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13087550	0.84[CEU][hapmap]
rs13091933	1.00[CEU][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13094336	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs175634	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs17787569	0.94[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs201193	0.81[EUR][1000 genomes]
rs201194	0.89[CEU][hapmap];0.91[EUR][1000 genomes]
rs201196	0.94[EUR][1000 genomes]
rs201197	0.83[EUR][1000 genomes]
rs201198	0.94[CEU][hapmap];0.94[EUR][1000 genomes]
rs2227280	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2232248	0.94[CEU][hapmap];0.86[EUR][1000 genomes]
rs2232253	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2236953	0.83[CEU][hapmap]
rs2236956	0.84[CEU][hapmap]
rs2236957	0.83[CEU][hapmap]
rs2236958	0.81[CEU][hapmap]
rs2236959	0.83[CEU][hapmap]
rs2236961	0.83[CEU][hapmap]
rs2236963	0.83[CEU][hapmap]
rs2236967	0.83[CEU][hapmap]
rs2236968	0.83[CEU][hapmap]
rs2236971	0.80[CEU][hapmap]
rs2236975	0.83[CEU][hapmap]
rs2236988	0.83[CEU][hapmap]
rs2269505	0.94[CEU][hapmap];0.81[EUR][1000 genomes]
rs2269507	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2282756	0.83[CEU][hapmap]
rs2282758	0.84[CEU][hapmap]
rs2355321	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2355323	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs34202063	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34267788	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34399912	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34434811	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34584636	0.94[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34756253	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34889917	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35655236	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35690191	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35714264	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35864641	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35908181	0.83[ASN][1000 genomes]
rs35986136	0.91[YRI][hapmap]
rs3804627	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs391620	0.91[EUR][1000 genomes]
rs398703	0.90[EUR][1000 genomes]
rs399484	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs399971	0.83[EUR][1000 genomes]
rs417592	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs441516	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs443030	0.84[EUR][1000 genomes]
rs4533647	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs453570	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs4688712	0.82[EUR][1000 genomes]
rs4688719	0.83[CEU][hapmap]
rs490634	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs59949730	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs622502	0.83[EUR][1000 genomes]
rs628081	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs67425923	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67588094	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6768300	0.82[EUR][1000 genomes]
rs67813889	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6787521	0.94[CEU][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6787890	0.83[CEU][hapmap]
rs6807916	0.92[YRI][hapmap]
rs695170	0.85[EUR][1000 genomes]
rs71326937	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73082948	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs750453	0.88[EUR][1000 genomes]
rs750510	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs762895	0.83[CEU][hapmap]
rs762897	0.83[CEU][hapmap]
rs762898	0.83[CEU][hapmap]
rs7646236	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs7652260	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs809451	0.83[EUR][1000 genomes]
rs809454	0.81[EUR][1000 genomes]
rs916217	0.83[CEU][hapmap]
rs929047	0.83[CEU][hapmap]
rs9830920	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523662	chr3:50144951-50584999	Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	esv1821728	chr3:50156142-50657253	Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
3	nsv470561	chr3:50158774-50584999	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	99 gene(s)	inside rSNPs	diseases
4	nsv876770	chr3:50158774-50609624	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
5	nsv1001993	chr3:50187646-50640808	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
6	esv3584502	chr3:50368278-50659741	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
7	nsv432419	chr3:50388396-50637496	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
8	nsv1013225	chr3:50440826-50700448	Flanking Active TSS Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
9	nsv536566	chr3:50440826-50700448	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
10	nsv984540	chr3:50473691-50669310	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
11	nsv1012501	chr3:50483037-50679591	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
12	nsv536567	chr3:50483037-50679591	Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
13	nsv460532	chr3:50536273-50616049	Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	17 gene(s)	inside rSNPs	diseases
14	nsv590272	chr3:50536273-50616049	Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	17 gene(s)	inside rSNPs	diseases
15	nsv460533	chr3:50574213-50678151	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
16	nsv590273	chr3:50574213-50678151	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:50577400-50579800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:50577400-50586400	Weak transcription	Brain Anterior Caudate	brain
3	chr3:50577600-50579800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:50577600-50583200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr3:50577600-50583200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:50577600-50583200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:50577600-50583200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:50577800-50580000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr3:50578000-50579200	Enhancers	K562	blood
10	chr3:50578200-50579200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr3:50578600-50595800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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