Variant report

Variant	rs6817200
Chromosome Location	chr4:78278877-78278878
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	chr4:78278110..78280443-chr4:78281438..78283101,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10010842	0.80[EUR][1000 genomes]
rs10013386	0.90[CEU][hapmap];0.85[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap];0.80[EUR][1000 genomes]
rs10018010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10031809	0.80[EUR][1000 genomes]
rs10518179	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap]
rs10518180	0.90[CEU][hapmap];0.85[CHB][hapmap]
rs11724731	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11933902	0.90[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap]
rs11941858	0.95[CEU][hapmap];0.85[CHB][hapmap]
rs11946669	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs12504998	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12505793	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1372784	0.90[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap]
rs1372785	0.90[CEU][hapmap];0.85[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs1372786	0.90[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap]
rs1545252	0.89[CEU][hapmap];0.84[CHB][hapmap]
rs1545253	0.90[CEU][hapmap];0.81[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs17002668	0.90[CEU][hapmap];0.81[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs1837968	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs1962026	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1962605	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2216629	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2866281	0.84[CEU][hapmap];0.95[MEX][hapmap];0.83[EUR][1000 genomes]
rs2866282	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2866284	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2866285	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28827478	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28858493	0.80[EUR][1000 genomes]
rs36076516	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4359931	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4579146	0.90[CEU][hapmap]
rs4859492	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4859493	0.84[YRI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4859824	0.90[CEU][hapmap];1.00[MEX][hapmap]
rs4859827	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4859829	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4859831	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4859832	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4859833	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4859834	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56403473	0.93[ASN][1000 genomes]
rs6533028	0.90[CEU][hapmap];0.84[CHB][hapmap]
rs6533029	0.90[CEU][hapmap];0.81[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs66500830	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6825194	0.80[EUR][1000 genomes]
rs6831412	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6832575	0.90[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap]
rs6843922	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6856470	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7375525	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs7375603	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs7378081	0.90[CEU][hapmap];0.95[MEX][hapmap]
rs7679224	0.86[CEU][hapmap];0.85[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs7699246	0.90[CEU][hapmap];0.81[CHB][hapmap];0.80[CHD][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs894433	0.86[CEU][hapmap]
rs894434	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs9307275	0.89[CEU][hapmap]

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	nsv1006017	chr4:78139780-78312974	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1002683	chr4:78170317-78281331	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1010450	chr4:78182037-78317840	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1004824	chr4:78188691-78312974	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1000447	chr4:78191608-78291173	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv1845782	chr4:78237955-78321598	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv829974	chr4:78240718-78415642	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1000392	chr4:78273146-78301467	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1011607	chr4:78273146-78302096	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	esv3388448	chr4:78275408-78288612	Enhancers Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv822623	chr4:78275840-78287983	Enhancers Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv964256	chr4:78275995-78288301	Weak transcription Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv822624	chr4:78276050-78287983	Enhancers Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv2422132	chr4:78276555-78281343	Enhancers Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv3584517	chr4:78276555-78281343	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv441893	chr4:78276555-78281343	Enhancers Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv2762449	chr4:78276559-78281343	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	esv3442840	chr4:78277532-78309591	Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:78276400-78281400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr4:78276600-78281200	Weak transcription	Fetal Kidney	kidney
3	chr4:78277400-78287800	Weak transcription	Fetal Thymus	thymus

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