Variant report

Variant	rs6790828
Chromosome Location	chr3:110731925-110731926
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:110731260..110732165-chr3:111056692..111057428,3	MCF-7	breast:
2	chr3:110731294..110732156-chr3:111031646..111032636,2	MCF-7	breast:
3	chr3:110731196..110732172-chr3:111258286..111259261,6	MCF-7	breast:
4	chr3:110731298..110731983-chr3:110798952..110799673,2	MCF-7	breast:
5	chr3:110731069..110732115-chr3:111056580..111057412,8	MCF-7	breast:
6	chr3:110731505..110732236-chr3:110971443..110972397,5	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1075303	0.84[AFR][1000 genomes]
rs11717706	0.85[AFR][1000 genomes]
rs11919892	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11927478	0.82[ASN][1000 genomes]
rs13060876	0.86[AFR][1000 genomes]
rs13061640	0.86[AFR][1000 genomes]
rs13072462	0.85[AFR][1000 genomes]
rs1382075	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1462789	0.80[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1462790	0.81[AFR][1000 genomes]
rs1462795	0.81[AFR][1000 genomes]
rs1477843	0.81[AFR][1000 genomes]
rs1477847	0.85[AFR][1000 genomes]
rs1477854	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1477855	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1547518	0.84[AFR][1000 genomes]
rs1585629	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1600059	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1871026	0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1903755	0.81[AFR][1000 genomes]
rs2126710	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2126711	0.83[ASN][1000 genomes]
rs2126712	0.83[ASN][1000 genomes]
rs2126713	0.85[AFR][1000 genomes]
rs2399373	0.85[AFR][1000 genomes]
rs2399378	0.84[AFR][1000 genomes]
rs4102676	0.81[AFR][1000 genomes]
rs4682229	0.84[AFR][1000 genomes]
rs4682230	0.85[AFR][1000 genomes]
rs4682231	0.85[AFR][1000 genomes]
rs5000277	0.82[AFR][1000 genomes]
rs6437940	0.80[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs66845903	0.83[ASN][1000 genomes]
rs6765948	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6781480	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7612572	0.85[AFR][1000 genomes]
rs7612667	0.85[AFR][1000 genomes]
rs7632375	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7632388	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9817950	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9818950	0.83[ASN][1000 genomes]
rs9821335	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs9826064	0.81[AFR][1000 genomes]
rs9828899	0.85[AFR][1000 genomes]
rs9837377	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9839674	0.81[AFR][1000 genomes]
rs9847598	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9876350	0.85[AFR][1000 genomes]
rs9877855	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv829674	chr3:110616256-110771049	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	esv1850918	chr3:110685181-110889974	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv1818353	chr3:110724133-110750176	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	chr3:110731400-110732000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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