Variant report

Variant	rs4946416
Chromosome Location	chr6:119760999-119761000
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	chr6:119748860..119751626-chr6:119758382..119761495,3	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1005506	0.89[ASW][hapmap]
rs11153815	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11153826	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12526344	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12528127	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529667	1.00[ASW][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.94[MEX][hapmap];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12530171	1.00[ASW][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.94[MEX][hapmap];0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1295374	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1295375	0.80[AMR][1000 genomes]
rs1295380	0.94[CHB][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1295394	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1342313	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1418376	0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1909506	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs195054	0.84[MEX][hapmap]
rs195057	0.81[CHD][hapmap];0.89[MEX][hapmap]
rs195060	0.91[CHD][hapmap]
rs195070	0.90[CHD][hapmap]
rs195077	0.91[CHD][hapmap];0.94[MEX][hapmap];0.81[AMR][1000 genomes]
rs1995224	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2066350	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2066351	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2153825	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2295203	0.94[CHB][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2357505	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3778110	0.81[CHB][hapmap];0.82[AMR][1000 genomes]
rs4945636	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4945638	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946421	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4946428	0.90[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4946430	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56095132	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs58391013	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6569059	0.89[ASW][hapmap]
rs6900388	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6903680	0.94[CHB][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6925366	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6935847	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6936821	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72952933	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs72952941	0.89[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7761301	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7765368	0.84[MEX][hapmap]
rs7774019	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs885028	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9372528	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9372531	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9372534	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9374785	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9374786	0.89[ASW][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9374789	0.89[ASW][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.94[MEX][hapmap];0.82[ASN][1000 genomes]
rs9374790	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9374797	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9374798	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9374799	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9374800	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9374801	0.90[CEU][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9374802	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9374803	0.90[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9385071	0.86[AMR][1000 genomes]
rs9385074	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9385075	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9387645	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9387647	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9387650	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9387654	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9398506	0.81[CHB][hapmap];0.90[CHD][hapmap];0.94[MEX][hapmap];0.82[AMR][1000 genomes]
rs9398507	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9398508	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9398509	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9401136	0.83[AMR][1000 genomes]
rs9401149	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1027904	chr6:119709488-120001986	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv533518	chr6:119712186-119998618	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	esv1845804	chr6:119747112-119771715	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119748200-119767000	Weak transcription	Colon Smooth Muscle	Colon
2	chr6:119757800-119763600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:119758000-119765200	Weak transcription	Spleen	Spleen
4	chr6:119760000-119763400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:119760200-119763400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:119760600-119774800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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