Variant report

Variant	rs56193942
Chromosome Location	chr3:163816839-163816840
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	chr3:163816031..163818067-chr3:163819325..163821288,2	MCF-7	breast:

Extended variants
information (count: 175 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs10446340	0.80[ASN][1000 genomes]
rs10513605	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10804812	0.83[ASN][1000 genomes]
rs10936401	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10936402	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10936404	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10936405	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10936406	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10936408	0.82[ASN][1000 genomes]
rs10936409	0.81[ASN][1000 genomes]
rs10936411	0.81[ASN][1000 genomes]
rs11536323	0.81[ASN][1000 genomes]
rs11543537	0.81[ASN][1000 genomes]
rs11706518	0.81[ASN][1000 genomes]
rs11706792	0.85[ASN][1000 genomes]
rs11707163	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11707867	0.81[ASN][1000 genomes]
rs11709197	0.82[ASN][1000 genomes]
rs11710319	0.82[ASN][1000 genomes]
rs11711476	0.85[ASN][1000 genomes]
rs11711705	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11715639	0.85[ASN][1000 genomes]
rs11718123	0.83[ASN][1000 genomes]
rs11718667	0.85[ASN][1000 genomes]
rs11719283	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11719688	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12485817	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12486559	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12486777	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12487512	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12487536	0.83[ASN][1000 genomes]
rs12488755	0.81[ASN][1000 genomes]
rs12488823	0.81[ASN][1000 genomes]
rs12489384	0.80[ASN][1000 genomes]
rs12489447	0.80[ASN][1000 genomes]
rs12489790	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12489916	0.85[ASN][1000 genomes]
rs12490006	0.82[ASN][1000 genomes]
rs12490037	0.83[ASN][1000 genomes]
rs12490057	0.83[ASN][1000 genomes]
rs12490826	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12490894	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12492243	0.83[ASN][1000 genomes]
rs12493169	0.80[ASN][1000 genomes]
rs12493224	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12494841	0.83[ASN][1000 genomes]
rs12494921	0.81[ASN][1000 genomes]
rs12495535	0.80[ASN][1000 genomes]
rs12497290	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12497350	0.85[ASN][1000 genomes]
rs12497621	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12629383	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12631347	0.85[ASN][1000 genomes]
rs12632056	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12634584	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12636667	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12638057	0.85[ASN][1000 genomes]
rs13093707	0.80[ASN][1000 genomes]
rs1321538	0.81[ASN][1000 genomes]
rs1321539	0.81[ASN][1000 genomes]
rs1349285	0.83[ASN][1000 genomes]
rs1349607	0.83[ASN][1000 genomes]
rs1375832	0.85[ASN][1000 genomes]
rs1375833	0.85[ASN][1000 genomes]
rs1375834	0.85[ASN][1000 genomes]
rs1375835	0.85[ASN][1000 genomes]
rs1375839	0.85[ASN][1000 genomes]
rs1375842	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1375843	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1375844	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1375845	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1375846	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1449921	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1449922	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1449932	0.85[ASN][1000 genomes]
rs1449933	0.85[ASN][1000 genomes]
rs1449934	0.85[ASN][1000 genomes]
rs1449936	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1449937	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1449938	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1449940	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1452156	0.82[ASN][1000 genomes]
rs1452157	0.83[ASN][1000 genomes]
rs1452160	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1452161	0.83[ASN][1000 genomes]
rs1452162	0.83[ASN][1000 genomes]
rs1470669	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1470670	0.82[ASN][1000 genomes]
rs1470799	0.82[ASN][1000 genomes]
rs1530755	0.82[ASN][1000 genomes]
rs1584556	0.83[ASN][1000 genomes]
rs1597402	0.82[ASN][1000 genomes]
rs1597404	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16847620	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16847629	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16847680	0.85[ASN][1000 genomes]
rs16847692	0.85[ASN][1000 genomes]
rs16847698	0.85[ASN][1000 genomes]
rs16847734	0.80[ASN][1000 genomes]
rs1839412	0.83[ASN][1000 genomes]
rs1839413	0.85[ASN][1000 genomes]
rs1839943	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1947343	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1992985	0.85[ASN][1000 genomes]
rs1992986	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1992987	0.85[ASN][1000 genomes]
rs2122375	0.81[ASN][1000 genomes]
rs2167122	0.81[ASN][1000 genomes]
rs2197949	0.83[ASN][1000 genomes]
rs2218768	0.83[ASN][1000 genomes]
rs2365544	0.81[ASN][1000 genomes]
rs34720743	0.82[ASN][1000 genomes]
rs34889124	0.80[ASN][1000 genomes]
rs35351537	0.85[ASN][1000 genomes]
rs35766450	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4280642	0.81[ASN][1000 genomes]
rs4449322	0.83[ASN][1000 genomes]
rs4521233	0.81[ASN][1000 genomes]
rs4547704	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs55680832	0.81[ASN][1000 genomes]
rs55725726	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55871417	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs55912583	0.81[ASN][1000 genomes]
rs55922928	0.82[ASN][1000 genomes]
rs55923107	0.85[ASN][1000 genomes]
rs55943692	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs56011219	0.81[ASN][1000 genomes]
rs56121628	0.82[ASN][1000 genomes]
rs56212321	0.82[ASN][1000 genomes]
rs56322923	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs56408530	0.82[ASN][1000 genomes]
rs56668299	0.83[ASN][1000 genomes]
rs56739753	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs56873046	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs58098647	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs59281714	0.85[ASN][1000 genomes]
rs59583312	0.81[ASN][1000 genomes]
rs59847585	0.81[ASN][1000 genomes]
rs60419632	0.83[ASN][1000 genomes]
rs73170720	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73170721	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73170722	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73170724	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73170725	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73170729	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73170739	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73170748	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73170752	0.85[ASN][1000 genomes]
rs73170753	0.85[ASN][1000 genomes]
rs73172621	0.83[ASN][1000 genomes]
rs73172622	0.83[ASN][1000 genomes]
rs73172626	0.83[ASN][1000 genomes]
rs73172627	0.83[ASN][1000 genomes]
rs73172632	0.83[ASN][1000 genomes]
rs73172635	0.83[ASN][1000 genomes]
rs9647384	0.80[ASN][1000 genomes]
rs9647389	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877820	chr3:163557163-164167085	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	esv2757903	chr3:163602449-163910060	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
3	esv2759199	chr3:163602449-163910060	Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv428097	chr3:163602449-163910060	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv428425	chr3:163602449-163910060	Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv877825	chr3:163620918-164126802	Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1006270	chr3:163651905-163849686	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1002992	chr3:163670436-163935375	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1012169	chr3:163673654-163911342	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
10	nsv997626	chr3:163747480-163883789	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv997859	chr3:163751814-163915341	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
12	nsv877833	chr3:163761825-164109377	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
13	nsv1012385	chr3:163768897-163831252	Enhancers Weak transcription Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv1009069	chr3:163787128-164323219	Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
15	esv3415350	chr3:163790299-163828765	Strong transcription ZNF genes & repeats Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
16	nsv877834	chr3:163795964-163981544	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
17	nsv877835	chr3:163795964-164018044	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
18	nsv877836	chr3:163795964-164109377	Enhancers Strong transcription Active TSS Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:163814400-163832200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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