Variant report

Variant	rs59923952
Chromosome Location	chr3:112876161-112876162
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	PBX3	chr3:112875656-112876260	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112875811..112877981-chr3:112929321..112930900,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240057	TF binding region
ENSG00000144857	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11717082	1.00[EUR][1000 genomes]
rs11916824	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13315100	1.00[EUR][1000 genomes]
rs13316462	1.00[EUR][1000 genomes]
rs1381062	1.00[EUR][1000 genomes]
rs1563932	1.00[EUR][1000 genomes]
rs1797613	1.00[EUR][1000 genomes]
rs1797618	1.00[EUR][1000 genomes]
rs2045689	1.00[EUR][1000 genomes]
rs2613918	1.00[EUR][1000 genomes]
rs2613924	1.00[EUR][1000 genomes]
rs2613930	1.00[EUR][1000 genomes]
rs2613953	1.00[EUR][1000 genomes]
rs2613955	1.00[EUR][1000 genomes]
rs2613965	1.00[EUR][1000 genomes]
rs2613966	1.00[EUR][1000 genomes]
rs2613969	1.00[EUR][1000 genomes]
rs2650095	1.00[EUR][1000 genomes]
rs2700195	1.00[EUR][1000 genomes]
rs2700197	1.00[EUR][1000 genomes]
rs2700211	1.00[EUR][1000 genomes]
rs2700213	1.00[EUR][1000 genomes]
rs2700228	1.00[EUR][1000 genomes]
rs2926810	1.00[EUR][1000 genomes]
rs2951457	1.00[EUR][1000 genomes]
rs57228683	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57766030	1.00[EUR][1000 genomes]
rs57995695	1.00[EUR][1000 genomes]
rs58100446	1.00[EUR][1000 genomes]
rs58310808	1.00[EUR][1000 genomes]
rs59069330	1.00[EUR][1000 genomes]
rs59171219	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59534035	1.00[EUR][1000 genomes]
rs60398051	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6787825	1.00[EUR][1000 genomes]
rs6798990	1.00[EUR][1000 genomes]
rs712528	1.00[EUR][1000 genomes]
rs7623507	1.00[EUR][1000 genomes]
rs7629976	1.00[EUR][1000 genomes]
rs799828	1.00[EUR][1000 genomes]
rs9826018	1.00[EUR][1000 genomes]
rs9864636	1.00[EUR][1000 genomes]
rs9873004	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv829677	chr3:112857075-113038987	Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1003511	chr3:112858775-112989045	Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112871000-112876600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:112871000-112881400	Weak transcription	Fetal Lung	lung
3	chr3:112873000-112876200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:112874800-112876600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:112874800-112877600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:112874800-112878000	Enhancers	Colon Smooth Muscle	Colon
7	chr3:112875400-112876200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:112875600-112876800	Enhancers	Fetal Kidney	kidney
9	chr3:112875600-112880200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:112875800-112876200	Weak transcription	Fetal Muscle Leg	muscle
11	chr3:112875800-112876600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:112875800-112877600	Enhancers	Rectal Smooth Muscle	rectum
13	chr3:112875800-112878400	Enhancers	Fetal Stomach	stomach
14	chr3:112876000-112876200	Enhancers	Adipose Nuclei	Adipose
15	chr3:112876000-112876400	Enhancers	Duodenum Smooth Muscle	Duodenum
16	chr3:112876000-112877000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:112876000-112877000	Enhancers	HSMMtube	muscle
18	chr3:112876000-112877200	Enhancers	Stomach Smooth Muscle	stomach

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