Variant report

Variant	rs3104678
Chromosome Location	chr10:58892275-58892276
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	chr10:58885374..58887771-chr10:58890005..58892664,2	MCF-7	breast:

Extended variants
information (count: 174 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:133)

rs_ID	r²[population]
rs10763457	0.83[ASN][1000 genomes]
rs10825986	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10825987	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10825988	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10825989	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10825990	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10825991	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10825992	0.83[ASN][1000 genomes]
rs10825993	0.83[ASN][1000 genomes]
rs10825994	0.83[ASN][1000 genomes]
rs11005639	0.88[ASN][1000 genomes]
rs11005651	0.88[ASN][1000 genomes]
rs11005687	0.94[ASN][1000 genomes]
rs1116023	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1116024	0.84[EUR][1000 genomes]
rs1116026	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1120047	0.95[ASN][1000 genomes]
rs11817223	0.94[ASN][1000 genomes]
rs12240722	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12240853	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12242643	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12262585	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12268403	0.81[ASN][1000 genomes]
rs12269721	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1303961	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1394103	0.88[ASN][1000 genomes]
rs1503903	0.81[EUR][1000 genomes]
rs1503904	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1503905	0.88[ASN][1000 genomes]
rs1503906	0.88[ASN][1000 genomes]
rs1503907	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1503908	0.88[ASN][1000 genomes]
rs1503911	0.88[ASN][1000 genomes]
rs1503914	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16910232	0.88[ASN][1000 genomes]
rs16910285	0.94[ASN][1000 genomes]
rs1818173	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1827580	0.88[ASN][1000 genomes]
rs1875769	0.88[ASN][1000 genomes]
rs1875770	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1875771	0.88[ASN][1000 genomes]
rs1875773	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1910496	0.88[ASN][1000 genomes]
rs1915690	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1915691	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1960403	0.84[EUR][1000 genomes]
rs2007334	0.88[ASN][1000 genomes]
rs2013953	0.88[ASN][1000 genomes]
rs2013958	0.88[ASN][1000 genomes]
rs2036504	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2036510	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2055556	0.88[ASN][1000 genomes]
rs2102229	0.88[ASN][1000 genomes]
rs2102230	0.85[ASN][1000 genomes]
rs2174231	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2174232	0.94[ASN][1000 genomes]
rs2202301	0.88[ASN][1000 genomes]
rs2893720	0.88[ASN][1000 genomes]
rs3104619	1.00[ASN][1000 genomes]
rs3104620	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3104621	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3104622	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3104623	0.88[ASN][1000 genomes]
rs3104624	0.83[EUR][1000 genomes]
rs3104626	0.88[ASN][1000 genomes]
rs3104627	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3104628	0.88[ASN][1000 genomes]
rs3104629	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3104633	0.88[ASN][1000 genomes]
rs3104634	0.88[ASN][1000 genomes]
rs3104635	0.80[ASN][1000 genomes]
rs3104636	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3104669	0.87[EUR][1000 genomes]
rs3104670	0.87[EUR][1000 genomes]
rs3104671	0.95[ASN][1000 genomes]
rs3104672	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3104673	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3104676	0.98[ASN][1000 genomes]
rs3104677	1.00[ASN][1000 genomes]
rs3105300	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105301	0.88[ASN][1000 genomes]
rs3105303	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105306	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105307	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3105308	0.88[ASN][1000 genomes]
rs3105309	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105310	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105314	0.88[ASN][1000 genomes]
rs3105316	0.88[ASN][1000 genomes]
rs3105321	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3105349	0.98[ASN][1000 genomes]
rs3105350	0.98[ASN][1000 genomes]
rs3105353	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3105354	1.00[ASN][1000 genomes]
rs3105355	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3105356	0.88[ASN][1000 genomes]
rs3105357	1.00[ASN][1000 genomes]
rs3105358	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3107504	0.94[ASN][1000 genomes]
rs3107511	0.94[ASN][1000 genomes]
rs34384617	0.91[ASN][1000 genomes]
rs35642791	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35674272	0.83[ASN][1000 genomes]
rs3861043	0.85[ASN][1000 genomes]
rs4347303	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4935688	0.94[ASN][1000 genomes]
rs4935689	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6481256	0.84[EUR][1000 genomes]
rs6481257	0.84[EUR][1000 genomes]
rs6481258	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6481259	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7068379	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7075131	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7076261	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7080973	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7081958	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7083057	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7089308	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7094185	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7097836	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71020944	0.88[ASN][1000 genomes]
rs7909495	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7912607	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7915950	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs924792	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs924794	0.88[ASN][1000 genomes]
rs983569	0.88[ASN][1000 genomes]
rs983570	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs988162	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs988486	0.88[ASN][1000 genomes]
rs990279	0.88[ASN][1000 genomes]
rs995236	0.88[ASN][1000 genomes]
rs995237	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:41 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895513	chr10:58672533-58979792	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv895515	chr10:58802422-58913651	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2757391	chr10:58822244-58948207	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv2759759	chr10:58822244-58948207	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv895517	chr10:58836950-58957774	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv895519	chr10:58843951-58905847	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv895520	chr10:58843951-58933549	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv551106	chr10:58846575-58892275	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	esv2756345	chr10:58846594-59027194	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv895521	chr10:58849853-58963458	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	esv2829927	chr10:58849853-58979792	Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv551107	chr10:58853784-58918899	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv895522	chr10:58853784-58918899	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv895523	chr10:58853784-58945720	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv895524	chr10:58853784-58953960	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv895525	chr10:58853784-58963458	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv895526	chr10:58853784-58970006	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv895527	chr10:58853784-58979792	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv895528	chr10:58853784-58991581	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
20	nsv551108	chr10:58870687-58918899	Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	esv34583	chr10:58883172-58936909	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
22	esv2754933	chr10:58883172-58936909	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
23	esv2753099	chr10:58883172-58948207	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
24	nsv467280	chr10:58885646-58936553	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
25	nsv551109	chr10:58885646-58936553	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
26	nsv895529	chr10:58885646-58936553	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
27	nsv895530	chr10:58885646-58937708	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
28	nsv895531	chr10:58885646-58938552	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
29	esv2760147	chr10:58890510-58893186	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
30	nsv467281	chr10:58890510-58936553	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
31	nsv551110	chr10:58890510-58936553	ZNF genes & repeats Enhancers Active TSS Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
32	nsv895532	chr10:58892275-58922421	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
33	nsv895533	chr10:58892275-58924473	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
34	nsv895534	chr10:58892275-58933549	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
35	nsv895535	chr10:58892275-58936553	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
36	nsv895536	chr10:58892275-58936553	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
37	nsv895537	chr10:58892275-58937708	Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
38	nsv895538	chr10:58892275-58938552	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
39	nsv895539	chr10:58892275-58945720	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
40	nsv895540	chr10:58892275-58950588	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
41	nsv551111	chr10:58892275-58953960	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	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	chr10:58886600-58897200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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