Variant report

Variant	rs1902282
Chromosome Location	chr3:160516996-160516997
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10513553	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12487861	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12494732	0.86[JPT][hapmap]
rs13080397	0.89[CEU][hapmap];0.85[JPT][hapmap];0.87[EUR][1000 genomes]
rs1378654	0.94[ASN][1000 genomes]
rs1378657	0.82[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1378658	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1455869	0.81[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[YRI][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1598495	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1829716	0.81[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1839017	0.84[CEU][hapmap];0.85[JPT][hapmap]
rs1851378	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1915929	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2049214	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2049215	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4256178	0.90[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]
rs59542611	0.86[ASN][1000 genomes]
rs6775743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6794047	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs718757	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[ASN][1000 genomes]
rs722871	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7618832	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.89[ASN][1000 genomes]
rs7630250	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648363	0.90[CEU][hapmap];0.82[JPT][hapmap]
rs779058	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs972909	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814394	0.89[ASN][1000 genomes]
rs9815499	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.89[ASN][1000 genomes]
rs9824439	0.84[EUR][1000 genomes]
rs9833075	0.82[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs9866566	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs9868489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9869116	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160498400-160522600	Weak transcription	Right Ventricle	heart
2	chr3:160509000-160522600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr3:160509600-160519000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:160511400-160518400	Weak transcription	Primary T cells from cord blood	blood
5	chr3:160511800-160519800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:160512800-160519400	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:160513400-160519000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:160513400-160522600	Weak transcription	Pancreas	Pancrea
9	chr3:160513800-160519600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:160514200-160520000	Weak transcription	Left Ventricle	heart
11	chr3:160514400-160522600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:160514800-160519200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr3:160515000-160518400	Weak transcription	Fetal Heart	heart
14	chr3:160515200-160519200	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr3:160515200-160519200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr3:160515400-160519000	Weak transcription	Liver	Liver
17	chr3:160515400-160526400	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr3:160515600-160518400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:160515600-160518600	Weak transcription	Adipose Nuclei	Adipose
20	chr3:160515600-160518800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr3:160515600-160519000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:160515600-160519000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr3:160515600-160519000	Weak transcription	Stomach Mucosa	stomach
24	chr3:160515600-160519200	Weak transcription	Right Atrium	heart
25	chr3:160515800-160518400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:160515800-160519200	Weak transcription	Brain Cingulate Gyrus	brain
27	chr3:160516000-160519000	Weak transcription	Psoas Muscle	Psoas

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