Variant report

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1047210	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs10936203	0.80[JPT][hapmap]
rs11706810	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs17236473	0.93[CHB][hapmap];0.84[JPT][hapmap]
rs17570467	0.88[JPT][hapmap]
rs17826221	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs17826257	0.82[JPT][hapmap]
rs1882126	0.88[JPT][hapmap]
rs1920649	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1920650	0.82[AFR][1000 genomes]
rs1920659	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3732706	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3851365	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs3851366	0.88[JPT][hapmap]
rs4679654	0.81[ASN][1000 genomes]
rs4679895	0.87[ASN][1000 genomes]
rs6798668	0.89[JPT][hapmap]
rs6808083	0.88[JPT][hapmap]
rs7634826	0.88[JPT][hapmap]
rs7640072	0.88[JPT][hapmap]
rs7648393	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9816525	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822982	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857106	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv1000453	chr3:159853305-160366357	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	259 gene(s)	inside rSNPs	diseases
3	nsv536779	chr3:159853305-160366357	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	259 gene(s)	inside rSNPs	diseases
4	nsv877703	chr3:160325458-160398885	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1920652	SMC4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160336200-160340600	Weak transcription	Stomach Mucosa	stomach
2	chr3:160336400-160340600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:160337000-160340600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:160337200-160340000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:160337200-160340400	Weak transcription	Hela-S3	cervix
6	chr3:160337400-160339400	Weak transcription	Liver	Liver
7	chr3:160337400-160339600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:160337400-160339600	Weak transcription	Muscle Satellite Cultured Cells	--

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