Variant report

Variant	rs1920175
Chromosome Location	chr3:116142646-116142647
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10513826	0.90[CEU][hapmap]
rs13094055	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13316464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1619451	0.80[JPT][hapmap];0.82[EUR][1000 genomes]
rs16824908	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16824913	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1920197	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35192256	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35220064	0.82[EUR][1000 genomes]
rs41442746	0.90[CEU][hapmap];0.80[JPT][hapmap]
rs4831097	0.90[CEU][hapmap];0.80[JPT][hapmap]
rs9289053	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9857124	0.90[CEU][hapmap];0.80[JPT][hapmap]
rs9875727	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9881385	0.93[CHB][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757886	chr3:116142130-116307542	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2759171	chr3:116142130-116307542	Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116141800-116142800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr3:116141800-116143200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr3:116141800-116143400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:116141800-116143400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:116141800-116143600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:116141800-116143600	Enhancers	Brain Germinal Matrix	brain
7	chr3:116141800-116143800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr3:116142000-116142800	Active TSS	Stomach Smooth Muscle	stomach
9	chr3:116142000-116143000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:116142000-116143000	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr3:116142000-116143200	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr3:116142000-116143600	Enhancers	Rectal Smooth Muscle	rectum
13	chr3:116142000-116143800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:116142000-116143800	Enhancers	Fetal Lung	lung
15	chr3:116142200-116142800	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr3:116142200-116142800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:116142200-116142800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:116142200-116142800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:116142200-116143000	Active TSS	Brain Anterior Caudate	brain
20	chr3:116142200-116143000	Active TSS	Brain Substantia Nigra	brain
21	chr3:116142200-116143200	Flanking Active TSS	Brain Hippocampus Middle	brain
22	chr3:116142200-116143800	Enhancers	Fetal Stomach	stomach
23	chr3:116142200-116144200	Enhancers	Stomach Mucosa	stomach
24	chr3:116142400-116142800	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
25	chr3:116142400-116142800	Active TSS	Brain Cingulate Gyrus	brain
26	chr3:116142400-116142800	Active TSS	Pancreatic Islets	Pancreatic Islet
27	chr3:116142400-116143000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr3:116142400-116143000	Active TSS	Colon Smooth Muscle	Colon
29	chr3:116142400-116143200	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr3:116142600-116142800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:116142600-116143000	Flanking Active TSS	Brain Angular Gyrus	brain
32	chr3:116142600-116143600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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