Variant report

Variant	rs4928154
Chromosome Location	chr3:98899033-98899034
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:98898412..98900467-chr3:98901353..98902956,2	MCF-7	breast:

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1066358	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066359	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066360	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066361	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066362	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066364	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066365	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1066366	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1066367	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1082506	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1082507	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1082508	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1082509	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1082510	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1082512	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1092312	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11720946	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12053880	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1520680	0.92[EUR][1000 genomes]
rs1608598	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17770503	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17770521	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1818726	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1818727	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2681447	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2682410	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2687667	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58807394	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59080898	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67357616	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67639354	0.85[ASN][1000 genomes]
rs68096327	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73147948	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73147953	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73147986	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73149623	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs774972	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9968233	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:77 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv999649	chr3:98815244-98947271	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv536664	chr3:98815244-98947271	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv530026	chr3:98837320-99340537	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1009629	chr3:98846458-98903887	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv1012264	chr3:98855069-98949409	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv1012110	chr3:98855939-98900805	Enhancers ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv1000298	chr3:98855939-98949409	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1004438	chr3:98863348-98949409	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv997372	chr3:98864056-98953749	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1008663	chr3:98867385-98953749	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	esv3518631	chr3:98868311-98921967	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	esv3518632	chr3:98868311-98921967	Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	nsv998521	chr3:98877662-98949409	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv1014277	chr3:98877662-98953749	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv1004810	chr3:98888976-98953749	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv3915	chr3:98892668-98940053	Weak transcription Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv1010759	chr3:98893510-98949409	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv1010512	chr3:98893510-98953749	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
22	nsv1012359	chr3:98893510-98965013	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
23	esv1798220	chr3:98894142-99020463	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
24	esv1818382	chr3:98894246-98899033	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
25	nsv591090	chr3:98894246-98902113	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
26	esv1805073	chr3:98894246-98930445	Enhancers ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
27	esv1829946	chr3:98894246-98930445	Enhancers Active TSS ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
28	nsv980066	chr3:98894567-98901227	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
29	nsv433343	chr3:98895386-98901139	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
30	esv1843941	chr3:98895386-98902344	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
31	nsv591091	chr3:98895386-98902344	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
32	esv1821218	chr3:98895637-98902205	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
33	nsv591092	chr3:98895637-98902344	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
34	nsv591093	chr3:98895650-98901389	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
35	esv1807582	chr3:98895650-98902205	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
36	esv1811198	chr3:98895650-98902205	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
37	esv1812458	chr3:98895650-98902344	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
38	esv1842165	chr3:98895650-98902344	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
39	nsv591094	chr3:98895650-98902344	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
40	nsv508229	chr3:98896531-98918586	Weak transcription ZNF genes & repeats Enhancers Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
41	esv2550503	chr3:98896884-98904347	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
42	esv3461137	chr3:98897062-98904360	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
43	nsv1003886	chr3:98897698-98949302	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
44	nsv1010851	chr3:98897698-98953749	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
45	esv3510072	chr3:98897912-98903560	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
46	esv3461140	chr3:98898087-98903635	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
47	esv3510071	chr3:98898362-98903435	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
48	esv3461135	chr3:98898586-98902680	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
49	esv2639651	chr3:98898659-98903267	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
50	esv3510073	chr3:98898845-98902547	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98879200-98899200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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