Variant report

Variant	rs12073399
Chromosome Location	chr1:240195951-240195952
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10495455	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10802834	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10926054	0.89[JPT][hapmap]
rs10926057	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10926058	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10926059	0.86[ASN][1000 genomes]
rs10926060	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10926061	1.00[JPT][hapmap]
rs10926062	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10926063	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10926065	1.00[JPT][hapmap]
rs10926077	0.84[EUR][1000 genomes]
rs10926078	0.84[EUR][1000 genomes]
rs10926079	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10926080	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10926081	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10926082	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10926083	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10926085	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10926086	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10926088	0.86[EUR][1000 genomes]
rs11807335	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12057421	0.86[ASN][1000 genomes]
rs12058044	0.86[ASN][1000 genomes]
rs12070647	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12072127	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12073451	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12073505	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12073550	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12075485	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12077059	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12080343	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12081559	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12088486	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12097597	1.00[JPT][hapmap]
rs12122977	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12125977	0.91[ASN][1000 genomes]
rs12127985	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12130047	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12130657	0.89[JPT][hapmap]
rs12132607	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12134717	0.85[EUR][1000 genomes]
rs13374476	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1539199	0.85[EUR][1000 genomes]
rs16839331	1.00[JPT][hapmap]
rs16839333	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs16839364	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16849055	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs17609907	0.85[EUR][1000 genomes]
rs1891228	0.84[EUR][1000 genomes]
rs2126382	0.89[JPT][hapmap]
rs2126384	0.89[JPT][hapmap]
rs35151598	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35309998	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35828768	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61830783	0.86[ASN][1000 genomes]
rs61830784	0.86[ASN][1000 genomes]
rs67353439	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs71646805	0.83[EUR][1000 genomes]
rs71646806	0.83[EUR][1000 genomes]
rs72762572	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72762574	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72762575	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72762577	0.83[EUR][1000 genomes]
rs73124800	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7535290	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7538507	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7555657	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7555761	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9887780	0.86[EUR][1000 genomes]
rs9887796	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9887964	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873351	chr1:239636613-240324200	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	esv2757778	chr1:239766094-240389504	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv2759009	chr1:239766094-240389504	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	esv35011	chr1:239907420-240298959	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	esv2756891	chr1:239907420-240308147	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv873353	chr1:239913038-240253320	Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv873354	chr1:239913038-240303322	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv827531	chr1:239914745-240300206	Active TSS Enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
9	nsv873355	chr1:239934541-240206985	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
10	nsv997935	chr1:240067402-240231654	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	esv3336326	chr1:240111594-240430845	Enhancers Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv1014002	chr1:240134783-240453624	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv535362	chr1:240134783-240453624	Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
14	nsv1012980	chr1:240178095-240221986	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1007197	chr1:240181417-240209741	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:240192400-240197000	Enhancers	NHDF-Ad	bronchial
2	chr1:240192400-240197400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:240192400-240197400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr1:240192600-240196800	Enhancers	Osteobl	bone
5	chr1:240192600-240197000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:240194000-240201200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:240194200-240196800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr1:240194600-240197000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:240195000-240196800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr1:240195800-240196400	Flanking Active TSS	A549	lung
11	chr1:240195800-240196600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr1:240195800-240197000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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