Variant report

Variant	rs2205344
Chromosome Location	chr3:60756204-60756205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11130781	0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs11130782	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11710207	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12185984	0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs13059280	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13065371	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067083	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs13073028	0.87[CHB][hapmap]
rs13098348	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098466	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098545	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13099811	1.00[CHB][hapmap];0.87[JPT][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1569346	0.87[ASN][1000 genomes]
rs2064012	0.81[ASN][1000 genomes]
rs2142294	0.85[ASN][1000 genomes]
rs2205342	0.94[CHB][hapmap];0.88[JPT][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2205343	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2364293	0.82[ASN][1000 genomes]
rs2594170	0.82[ASN][1000 genomes]
rs2594171	0.82[ASN][1000 genomes]
rs2736731	0.82[ASN][1000 genomes]
rs4974227	1.00[CHB][hapmap];0.87[JPT][hapmap];0.97[ASN][1000 genomes]
rs57203484	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57595293	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6762120	0.82[ASN][1000 genomes]
rs6762122	0.81[ASN][1000 genomes]
rs6764320	0.82[ASN][1000 genomes]
rs6771383	0.87[ASN][1000 genomes]
rs6786213	0.94[CHB][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]
rs6787897	0.89[ASN][1000 genomes]
rs7429680	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs926139	0.83[ASN][1000 genomes]
rs9754707	0.82[ASN][1000 genomes]
rs9840977	0.98[ASN][1000 genomes]
rs9842407	0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs9847131	0.89[ASN][1000 genomes]
rs9878801	0.94[CHB][hapmap];0.83[JPT][hapmap]
rs9881274	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9882068	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[ASN][1000 genomes]

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	nsv529602	chr3:60088353-60830769	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv998815	chr3:60495872-60830769	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv999828	chr3:60537384-60785274	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60747200-60756400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:60755600-60757800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:60755600-60758800	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr3:60755600-60758800	Enhancers	Placenta	Placenta
5	chr3:60755800-60758800	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr3:60756000-60757000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:60756000-60757200	Enhancers	Fetal Lung	lung
8	chr3:60756000-60757600	Enhancers	Fetal Brain Male	brain
9	chr3:60756000-60758200	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr3:60756000-60758200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:60756200-60757000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:60756200-60757200	Enhancers	NHEK	skin
13	chr3:60756200-60757400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:60756200-60758000	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr3:60756200-60758600	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr3:60756200-60758800	Enhancers	H1 Cell Line	embryonic stem cell
17	chr3:60756200-60759000	Enhancers	H9 Cell Line	embryonic stem cell
18	chr3:60756200-60759400	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr3:60756200-60759600	Enhancers	HUES6 Cell Line	embryonic stem cell

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