Variant report

Variant	rs1478168
Chromosome Location	chr3:162309582-162309583
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	chr3:162307801..162310469-chr3:162314134..162316904,3	MCF-7	breast:

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10048975	0.83[EUR][1000 genomes]
rs10513588	0.83[EUR][1000 genomes]
rs10513589	0.82[EUR][1000 genomes]
rs1115913	0.81[EUR][1000 genomes]
rs1121055	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11712189	0.81[EUR][1000 genomes]
rs12054159	0.82[EUR][1000 genomes]
rs12330272	0.83[EUR][1000 genomes]
rs13314288	0.81[EUR][1000 genomes]
rs13316530	0.81[EUR][1000 genomes]
rs13318622	0.81[EUR][1000 genomes]
rs13327474	0.81[EUR][1000 genomes]
rs1382211	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1382212	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1382213	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1478170	0.81[EUR][1000 genomes]
rs1478171	0.81[EUR][1000 genomes]
rs1496738	0.82[EUR][1000 genomes]
rs1600099	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16850701	0.81[EUR][1000 genomes]
rs17706403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17707153	0.83[EUR][1000 genomes]
rs17757426	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17758116	0.82[EUR][1000 genomes]
rs1812538	0.81[EUR][1000 genomes]
rs1845912	0.81[EUR][1000 genomes]
rs1904101	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1904102	0.81[EUR][1000 genomes]
rs1960377	0.81[EUR][1000 genomes]
rs2045861	0.81[EUR][1000 genomes]
rs2045862	0.81[EUR][1000 genomes]
rs2086092	0.81[EUR][1000 genomes]
rs2086093	0.81[EUR][1000 genomes]
rs2086094	0.81[EUR][1000 genomes]
rs2126851	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2318633	0.81[EUR][1000 genomes]
rs28619440	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28748005	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28814090	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28879757	0.82[EUR][1000 genomes]
rs3907217	0.85[EUR][1000 genomes]
rs6441534	0.82[EUR][1000 genomes]
rs6806429	0.81[EUR][1000 genomes]
rs6806463	0.81[EUR][1000 genomes]
rs721762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7427103	0.81[EUR][1000 genomes]
rs7427749	0.81[EUR][1000 genomes]
rs7635263	0.82[EUR][1000 genomes]
rs7647069	0.81[EUR][1000 genomes]
rs9290127	0.81[EUR][1000 genomes]
rs9290128	1.00[ASN][1000 genomes]
rs9290129	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs931049	0.81[EUR][1000 genomes]
rs9812760	0.80[EUR][1000 genomes]
rs9822252	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9822369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9823059	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826188	0.81[EUR][1000 genomes]
rs9826391	0.81[EUR][1000 genomes]
rs9826812	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9828812	0.81[EUR][1000 genomes]
rs9831271	0.81[EUR][1000 genomes]
rs9834927	0.81[EUR][1000 genomes]
rs9835417	0.81[EUR][1000 genomes]
rs9836512	0.81[EUR][1000 genomes]
rs9839765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841809	0.81[EUR][1000 genomes]
rs9845518	0.83[EUR][1000 genomes]
rs9847771	0.81[EUR][1000 genomes]
rs9850871	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9853295	0.81[EUR][1000 genomes]
rs9859293	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9860466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866056	0.81[EUR][1000 genomes]
rs9874970	0.81[EUR][1000 genomes]
rs9879388	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9880391	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9880875	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9883974	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs993524	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006802	chr3:161921063-162599175	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv877735	chr3:162123179-162380954	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv428424	chr3:162145988-163033943	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1012160	chr3:162182166-162540478	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1000912	chr3:162186601-162311128	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv592201	chr3:162188625-163142162	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv829775	chr3:162211618-162406402	Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv470994	chr3:162217993-162945834	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv877755	chr3:162218849-162386891	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv877756	chr3:162218849-162391801	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv877757	chr3:162226534-162391801	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv1005142	chr3:162284967-162447818	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv877758	chr3:162287573-162521339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv877759	chr3:162303276-162521339	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv592206	chr3:162305516-162380954	Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv3422104	chr3:162307483-162310231	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
17	esv3331609	chr3:162307733-162310056	Genic enhancers Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:162308800-162310400	Enhancers	Dnd41	blood

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