Variant report

Variant	rs55699806
Chromosome Location	chr3:133170221-133170222
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:133169398..133190840-chr3:133288286..133298861,41	MCF-7	breast:
2	chr3:133169681..133172224-chr3:133173356..133176269,2	K562	blood:
3	chr3:133170213..133174135-chr3:133291301..133294544,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000249993	Chromatin interaction
ENSG00000091527	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1961940	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2078262	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2370246	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56299019	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7632831	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[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	nsv877504	chr3:133122216-133172374	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1007047	chr3:133137664-133181388	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1006289	chr3:133137664-133186808	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv1829199	chr3:133158065-133213047	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv877505	chr3:133167363-133235272	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133161000-133191000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:133162400-133170400	Enhancers	Fetal Thymus	thymus
3	chr3:133165400-133178600	Weak transcription	Aorta	Aorta
4	chr3:133165600-133170400	Enhancers	Primary B cells from peripheral blood	blood
5	chr3:133166800-133171000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:133167000-133170800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:133167600-133172400	Weak transcription	Gastric	stomach
8	chr3:133167800-133171400	Weak transcription	Placenta	Placenta
9	chr3:133168000-133171400	Weak transcription	Fetal Lung	lung
10	chr3:133168000-133172200	Weak transcription	Stomach Mucosa	stomach
11	chr3:133168200-133170800	Weak transcription	HepG2	liver
12	chr3:133168200-133171000	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:133168200-133171800	Weak transcription	Brain Germinal Matrix	brain
14	chr3:133168200-133171800	Weak transcription	Brain Substantia Nigra	brain
15	chr3:133168200-133178800	Weak transcription	Fetal Kidney	kidney
16	chr3:133169400-133171200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:133169400-133171200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr3:133169400-133177400	Weak transcription	Thymus	Thymus
19	chr3:133169800-133179400	Weak transcription	GM12878-XiMat	blood
20	chr3:133170200-133171200	Enhancers	A549	lung
21	chr3:133170200-133172600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr3:133170200-133173200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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