Variant report

Variant	rs2846109
Chromosome Location	chr11:120588100-120588101
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	chr11:120586309..120588238-chr11:120588252..120589968,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10892613	1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10892614	0.86[ASN][1000 genomes]
rs10892615	0.86[ASN][1000 genomes]
rs11217987	0.81[CEU][hapmap]
rs11217988	0.81[CEU][hapmap]
rs11217989	0.81[CEU][hapmap]
rs12270261	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs12270409	0.81[CEU][hapmap]
rs12272864	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs12273984	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12274300	0.81[CEU][hapmap]
rs12276440	0.89[CEU][hapmap]
rs12278795	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12280296	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12281464	0.90[CEU][hapmap]
rs12286467	1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs12288261	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12291927	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12293393	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12293509	0.82[EUR][1000 genomes]
rs12294858	0.82[CEU][hapmap]
rs12295113	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12295200	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs17124211	0.89[CEU][hapmap]
rs2846107	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2846108	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2852225	1.00[CEU][hapmap]
rs2852227	1.00[CEU][hapmap]
rs4567478	0.81[CEU][hapmap]
rs58356578	0.87[ASN][1000 genomes]
rs61901360	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61901361	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61901362	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61901363	0.82[EUR][1000 genomes]
rs61901364	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61901366	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61901367	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61901368	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61901369	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61901370	0.80[EUR][1000 genomes]
rs61901371	0.91[ASN][1000 genomes]
rs61901372	0.91[ASN][1000 genomes]
rs61901373	0.91[ASN][1000 genomes]
rs61901374	0.91[ASN][1000 genomes]
rs61901375	0.91[ASN][1000 genomes]
rs61901376	0.80[EUR][1000 genomes]
rs61901377	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61901378	0.84[EUR][1000 genomes]
rs61901382	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61901398	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61901399	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61901400	0.94[ASN][1000 genomes]
rs61902686	0.88[ASN][1000 genomes]
rs61902687	0.88[ASN][1000 genomes]
rs61902689	0.82[EUR][1000 genomes]
rs6589834	0.88[JPT][hapmap];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7102869	1.00[CEU][hapmap]
rs7103228	0.81[CEU][hapmap]
rs7103418	0.90[CEU][hapmap]
rs7119619	0.82[CEU][hapmap]
rs7944756	0.90[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9630199	0.89[CEU][hapmap]
rs9630200	0.89[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054407	chr11:120535570-120630114	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1053607	chr11:120540795-120802006	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv3693392	chr11:120549745-120628012	Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1041465	chr11:120582595-120630114	Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
5	nsv541180	chr11:120582595-120630114	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
6	nsv1038264	chr11:120582595-120799335	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv541181	chr11:120582595-120799335	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv832286	chr11:120585843-120745846	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120582200-120588800	Weak transcription	Brain Cingulate Gyrus	brain
2	chr11:120585800-120588600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr11:120585800-120590000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:120586200-120588600	Enhancers	Ovary	ovary
5	chr11:120586200-120590000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:120586400-120588400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr11:120586400-120588600	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr11:120586400-120588600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr11:120586400-120588800	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr11:120586400-120593200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr11:120586600-120588600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr11:120586600-120590400	Weak transcription	Fetal Intestine Large	intestine
13	chr11:120587200-120589600	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr11:120587600-120590000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr11:120587800-120589200	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr11:120587800-120589600	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr11:120587800-120589600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr11:120587800-120590600	Enhancers	H1 Cell Line	embryonic stem cell
19	chr11:120587800-120591000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr11:120588000-120590200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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