Variant report

Variant	rs7939940
Chromosome Location	chr11:63551535-63551536
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	chr11:63546974..63548938-chr11:63550059..63551593,2	MCF-7	breast:
2	chr11:63550785..63552741-chr11:63579503..63582374,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168005	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10501394	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11231535	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11231543	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11551942	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11551944	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11820129	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1186941	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1211688	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12274980	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17158453	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17656941	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1789219	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2509744	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959876	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959880	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959886	0.87[EUR][1000 genomes]
rs3016865	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34109368	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35345497	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35754698	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs476034	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs476691	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs482915	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs484619	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs491231	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs500726	0.88[EUR][1000 genomes]
rs500991	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs511819	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs515645	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs517700	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs518490	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs518692	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs521464	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs523093	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs523809	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs534505	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs534876	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs539306	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs541809	0.86[EUR][1000 genomes]
rs550629	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs551466	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs557882	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs559405	0.89[EUR][1000 genomes]
rs560938	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs562549	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs566813	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs567756	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs568769	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs568790	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs580695	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs588523	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928162	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928163	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928165	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928166	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928167	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928168	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928195	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928196	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928197	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928202	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928203	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928204	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928205	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928206	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928208	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928209	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928211	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928212	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928214	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928234	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928236	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928237	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928238	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928239	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928241	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928243	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928244	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928245	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61928246	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928247	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61928248	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6591821	0.94[EUR][1000 genomes]
rs6591822	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7106670	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111395	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7117206	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7119961	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7127454	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128040	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128970	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7928900	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7931908	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7932117	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7943981	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7944003	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7944094	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7945972	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949389	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949447	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051171	chr11:62987064-63835715	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	100 gene(s)	inside rSNPs	diseases
2	nsv832183	chr11:63416678-63564565	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv468589	chr11:63515752-63713239	Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv555180	chr11:63515752-63713239	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	esv3413647	chr11:63550425-63582789	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:63546800-63551600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:63547000-63551600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr11:63547000-63551800	Weak transcription	Fetal Stomach	stomach
4	chr11:63547200-63551600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr11:63550200-63552200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr11:63551000-63551600	Enhancers	HepG2	liver
7	chr11:63551200-63552000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr11:63551400-63551800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr11:63551400-63552000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr11:63551400-63552000	Enhancers	Placenta	Placenta

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