Variant report

Variant	rs10880097
Chromosome Location	chr12:41939000-41939001
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10459287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10506193	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10506194	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs10785269	0.83[CEU][hapmap]
rs10880070	0.81[JPT][hapmap]
rs10880081	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10880082	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10880084	1.00[JPT][hapmap]
rs10880086	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10880087	0.90[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10880088	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10880089	0.95[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10880090	0.90[JPT][hapmap]
rs10880091	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10880093	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10880095	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10880096	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10880101	0.81[JPT][hapmap]
rs10880102	0.83[JPT][hapmap]
rs11180879	0.81[JPT][hapmap]
rs11180883	0.81[JPT][hapmap]
rs11180886	0.81[JPT][hapmap]
rs11180903	0.81[JPT][hapmap]
rs11180917	0.81[JPT][hapmap]
rs11180928	0.81[JPT][hapmap]
rs11180936	0.84[CEU][hapmap]
rs11180943	0.89[CEU][hapmap]
rs11180947	0.81[JPT][hapmap]
rs11180948	0.81[JPT][hapmap]
rs11180955	0.81[JPT][hapmap]
rs11180961	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11180969	0.81[JPT][hapmap]
rs11180970	0.91[JPT][hapmap]
rs11180972	0.91[JPT][hapmap]
rs11180973	0.91[JPT][hapmap]
rs11180974	0.91[JPT][hapmap]
rs11180975	0.91[JPT][hapmap]
rs11180976	0.91[JPT][hapmap]
rs11180978	0.91[JPT][hapmap]
rs11180979	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11180981	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11180982	0.82[ASN][1000 genomes]
rs11180983	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs11180984	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11180988	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11180989	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11180994	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11180995	0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs11180997	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs11181000	0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs11181005	0.91[JPT][hapmap]
rs11181010	0.81[JPT][hapmap]
rs12227303	0.82[JPT][hapmap]
rs12227540	1.00[JPT][hapmap]
rs12229610	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12230775	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12372586	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12582909	0.82[JPT][hapmap]
rs1379766	0.81[JPT][hapmap]
rs1458153	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1458172	1.00[JPT][hapmap]
rs1458173	0.91[JPT][hapmap]
rs17129470	0.82[JPT][hapmap]
rs17579291	0.84[CEU][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17835484	0.90[JPT][hapmap]
rs1902908	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2054211	0.95[CEU][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2125289	0.90[JPT][hapmap]
rs2608709	0.84[CEU][hapmap]
rs285578	0.91[JPT][hapmap]
rs285583	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs285586	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs285587	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3110189	0.84[CEU][hapmap]
rs4768355	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs725527	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73130674	0.88[AMR][1000 genomes];0.98[EUR][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	nsv832384	chr12:41772648-41971430	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv3337301	chr12:41851654-42093677	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv899040	chr12:41905897-42181706	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:41925600-41949800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr12:41925800-41944800	Weak transcription	Brain Germinal Matrix	brain

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