Variant report

Variant	rs12060040
Chromosome Location	chr1:225353276-225353277
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10915789	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10915795	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10915799	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10915800	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10915801	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10915808	0.81[ASN][1000 genomes]
rs11484699	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11484714	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11484715	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11487470	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12062457	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12064443	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12064759	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12064870	0.81[ASN][1000 genomes]
rs12066458	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12067725	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12068014	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12069353	0.81[ASN][1000 genomes]
rs12069461	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12070493	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12072720	0.88[ASN][1000 genomes]
rs12078696	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12079258	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12081545	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12085406	0.81[ASN][1000 genomes]
rs12086185	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12088357	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12089294	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12089735	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12091019	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12091058	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12091059	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12092293	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12094453	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12094780	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12097555	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1480108	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1600530	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16844389	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16844455	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1842335	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7543666	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]

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	nsv873225	chr1:225162060-225373936	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv998899	chr1:225210813-225496353	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv468205	chr1:225304971-225476025	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv549264	chr1:225304971-225476025	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv945672	chr1:225339532-225561349	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv873226	chr1:225347689-225555602	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225301800-225355800	Weak transcription	Pancreas	Pancrea
2	chr1:225322000-225356000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:225326400-225355800	Weak transcription	Ovary	ovary
4	chr1:225332800-225356000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:225338200-225355600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr1:225344000-225356200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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