Variant report

Variant	rs12108002
Chromosome Location	chr3:19304217-19304218
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs11914725	1.00[CEU][hapmap]
rs11915614	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11915915	1.00[CEU][hapmap]
rs11917497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11917668	1.00[CEU][hapmap]
rs11918112	1.00[CEU][hapmap]
rs11918147	1.00[CEU][hapmap]
rs11918308	1.00[CEU][hapmap]
rs11918533	1.00[CEU][hapmap]
rs11918685	1.00[CEU][hapmap]
rs11919461	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs11922330	1.00[CEU][hapmap]
rs11923068	1.00[CEU][hapmap]
rs11923157	1.00[CEU][hapmap]
rs11923699	1.00[CEU][hapmap]
rs11923833	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11924695	1.00[CEU][hapmap]
rs11925033	0.88[ASN][1000 genomes]
rs11925180	1.00[CEU][hapmap]
rs11925510	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11926006	1.00[ASN][1000 genomes]
rs11926160	1.00[CEU][hapmap]
rs11926587	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11926703	1.00[CEU][hapmap]
rs11927110	1.00[CEU][hapmap]
rs11927919	1.00[CEU][hapmap]
rs11928219	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11929014	1.00[CEU][hapmap]
rs1493925	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17005744	1.00[CEU][hapmap]
rs17005761	1.00[CEU][hapmap]
rs17005762	1.00[CEU][hapmap]
rs17005767	1.00[CEU][hapmap]
rs17005770	1.00[CEU][hapmap]
rs17005771	1.00[CEU][hapmap]
rs17005800	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17005811	1.00[CEU][hapmap]
rs1901008	1.00[CEU][hapmap]
rs2122380	1.00[CEU][hapmap]
rs2363094	1.00[CEU][hapmap]
rs2363095	1.00[CEU][hapmap]
rs59879234	1.00[ASN][1000 genomes]
rs60319514	1.00[ASN][1000 genomes]
rs60737666	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6769519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6783211	1.00[CEU][hapmap]
rs7427695	1.00[CEU][hapmap]
rs7433172	1.00[CEU][hapmap]
rs7613079	1.00[CEU][hapmap]
rs7613229	1.00[ASN][1000 genomes]
rs7622654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7625953	1.00[CEU][hapmap]
rs7626630	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7628012	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7629339	1.00[CEU][hapmap]
rs7632339	1.00[CEU][hapmap]
rs7634126	1.00[CEU][hapmap]
rs7636919	1.00[CEU][hapmap]
rs7639252	1.00[ASN][1000 genomes]
rs7639506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7639540	1.00[ASN][1000 genomes]
rs7639589	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7641298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7643919	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7645122	1.00[CEU][hapmap]
rs7647965	1.00[CEU][hapmap]
rs7652467	1.00[ASN][1000 genomes]
rs7652572	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9755604	1.00[CEU][hapmap]
rs9756893	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517847	chr3:18845347-19483695	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1010123	chr3:18990307-19989504	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1004602	chr3:19031671-19930052	Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv536511	chr3:19031671-19930052	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	esv3366090	chr3:19300198-19304796	Weak transcription Enhancers Strong transcription	n/a	n/a	inside rSNPs	diseases
6	esv3377413	chr3:19300598-19304696	Weak transcription Enhancers Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:19293200-19305600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:19296800-19307200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:19300000-19324200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:19300800-19309800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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