Variant report

Variant	rs16824908
Chromosome Location	chr3:116160979-116160980
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10513826	0.89[CEU][hapmap];0.87[CHD][hapmap]
rs13094055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13316464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[JPT][hapmap];0.93[LWK][hapmap];0.89[MKK][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16824913	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1920175	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]
rs1920197	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35192256	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35220064	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs41442746	0.89[CEU][hapmap];0.87[CHD][hapmap];0.81[LWK][hapmap]
rs4831097	0.89[CEU][hapmap];0.87[CHD][hapmap]
rs9289053	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857124	0.89[CEU][hapmap];0.82[CHD][hapmap]
rs9875727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9881385	0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116143400-116161200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr3:116143600-116161000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:116152800-116161000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:116152800-116161200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:116152800-116161400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr3:116153200-116161200	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:116158400-116161800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:116158800-116161600	Enhancers	NH-A	brain
9	chr3:116159000-116161000	Enhancers	Brain Substantia Nigra	brain
10	chr3:116159000-116163400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:116159200-116161200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:116159400-116161200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:116159400-116161200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr3:116159600-116161000	Enhancers	Brain Anterior Caudate	brain
15	chr3:116159600-116161200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:116160200-116162200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:116160400-116161000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr3:116160400-116161000	Enhancers	Brain Cingulate Gyrus	brain
19	chr3:116160400-116161200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:116160400-116165000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
21	chr3:116160600-116161000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:116160600-116161000	Active TSS	Brain Germinal Matrix	brain
23	chr3:116160600-116161000	Enhancers	Rectal Smooth Muscle	rectum
24	chr3:116160600-116161200	Enhancers	Fetal Muscle Trunk	muscle
25	chr3:116160600-116165200	Active TSS	Brain Inferior Temporal Lobe	brain
26	chr3:116160800-116161000	Active TSS	Brain Angular Gyrus	brain
27	chr3:116160800-116162600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr3:116160800-116164600	Active TSS	Brain Hippocampus Middle	brain

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