Variant report

Variant	rs3773239
Chromosome Location	chr3:78782564-78782565
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10049014	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10049102	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10428105	0.81[ASN][1000 genomes]
rs11917512	0.82[ASN][1000 genomes]
rs11919682	0.87[ASN][1000 genomes]
rs11925970	0.81[ASN][1000 genomes]
rs11927666	0.81[ASN][1000 genomes]
rs11928868	0.82[ASN][1000 genomes]
rs12106862	0.81[ASN][1000 genomes]
rs1395784	0.81[ASN][1000 genomes]
rs1457659	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17016453	0.81[ASN][1000 genomes]
rs17016466	0.81[ASN][1000 genomes]
rs17303276	0.81[ASN][1000 genomes]
rs17375110	0.81[ASN][1000 genomes]
rs17375496	0.81[ASN][1000 genomes]
rs17375739	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1865860	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1865861	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1865863	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1961636	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28494803	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3732663	0.81[ASN][1000 genomes]
rs3773227	0.81[ASN][1000 genomes]
rs3773231	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3773234	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773240	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773245	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821602	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821603	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4263256	0.81[ASN][1000 genomes]
rs56077922	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58423115	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61053911	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67137735	0.81[ASN][1000 genomes]
rs67347336	0.81[ASN][1000 genomes]
rs67498832	0.81[ASN][1000 genomes]
rs6769933	0.81[ASN][1000 genomes]
rs6787349	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6788434	0.81[ASN][1000 genomes]
rs6788511	0.81[ASN][1000 genomes]
rs6806079	0.81[ASN][1000 genomes]
rs73109717	0.81[ASN][1000 genomes]
rs73109772	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73109774	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73850750	0.81[ASN][1000 genomes]
rs7622194	0.81[ASN][1000 genomes]
rs7624482	0.81[ASN][1000 genomes]
rs767182	0.81[ASN][1000 genomes]
rs9309814	0.81[ASN][1000 genomes]
rs9808950	0.82[ASN][1000 genomes]
rs9819398	0.91[ASN][1000 genomes]
rs9840033	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9861603	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9866912	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9880072	0.81[ASN][1000 genomes]
rs9880316	0.81[ASN][1000 genomes]
rs9882811	0.81[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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78766600-78783000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:78772000-78792200	Weak transcription	HepG2	liver
3	chr3:78774400-78783200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr3:78778200-78782800	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr3:78778600-78783200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr3:78778800-78783000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:78778800-78783400	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:78778800-78785600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:78778800-78787200	Weak transcription	HSMM	muscle
10	chr3:78779000-78782800	Weak transcription	Fetal Lung	lung
11	chr3:78779000-78782800	Weak transcription	Osteobl	bone
12	chr3:78779600-78783200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr3:78780000-78782800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr3:78780000-78787000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:78780400-78782800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:78780400-78783000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr3:78780600-78785600	Weak transcription	NHDF-Ad	bronchial
18	chr3:78781000-78783600	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr3:78781600-78783600	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr3:78782000-78783600	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr3:78782200-78787000	Weak transcription	Brain Germinal Matrix	brain
22	chr3:78782400-78782800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr3:78782400-78782800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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