Variant report

Variant	rs62263608
Chromosome Location	chr3:105166734-105166735
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105166673..105169567-chr3:105177342..105179589,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1038522	0.93[ASN][1000 genomes]
rs1044240	0.87[ASN][1000 genomes]
rs11714319	0.93[ASN][1000 genomes]
rs2049217	0.87[ASN][1000 genomes]
rs3772557	0.87[ASN][1000 genomes]
rs62260776	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62260827	0.87[ASN][1000 genomes]
rs62262969	0.87[ASN][1000 genomes]
rs62263560	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62263605	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62263606	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6437601	0.87[ASN][1000 genomes]
rs6764212	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6765258	0.87[ASN][1000 genomes]
rs6778460	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6804574	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175483	0.87[ASN][1000 genomes]
rs73175493	0.87[ASN][1000 genomes]
rs73189010	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621905	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv877304	chr3:105122214-105198374	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105137400-105178600	Weak transcription	Primary B cells from cord blood	blood
2	chr3:105144400-105185000	Weak transcription	Aorta	Aorta
3	chr3:105150800-105177800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:105155800-105177600	Weak transcription	HSMM	muscle
5	chr3:105159400-105167400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:105159600-105167400	Weak transcription	Brain Angular Gyrus	brain
7	chr3:105160400-105167400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:105160800-105167000	Weak transcription	Fetal Heart	heart
9	chr3:105162000-105167400	Weak transcription	Gastric	stomach
10	chr3:105163400-105177200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:105163600-105167400	Weak transcription	NHLF	lung
12	chr3:105163600-105167400	Weak transcription	Osteobl	bone
13	chr3:105163600-105177400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:105163800-105167200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:105165600-105167200	Enhancers	Brain Cingulate Gyrus	brain
16	chr3:105165600-105167400	Enhancers	Brain Anterior Caudate	brain
17	chr3:105166200-105166800	Enhancers	Pancreas	Pancrea
18	chr3:105166200-105167200	Enhancers	Brain Hippocampus Middle	brain
19	chr3:105166200-105167400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:105166200-105167400	Weak transcription	Left Ventricle	heart
21	chr3:105166200-105167600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
22	chr3:105166200-105168600	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr3:105166400-105167200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:105166400-105167200	Weak transcription	Liver	Liver
25	chr3:105166400-105167200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr3:105166400-105167800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:105166400-105168000	Enhancers	A549	lung
28	chr3:105166600-105166800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr3:105166600-105167200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:105166600-105167400	Weak transcription	Brain Substantia Nigra	brain

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