Variant report

Variant	rs62240079
Chromosome Location	chr3:59936382-59936383
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs12152244	1.00[ASN][1000 genomes]
rs12487051	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12495052	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12495662	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12497400	1.00[ASN][1000 genomes]
rs17061683	1.00[ASN][1000 genomes]
rs17061684	1.00[ASN][1000 genomes]
rs17254065	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17254231	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17254574	1.00[ASN][1000 genomes]
rs17255191	1.00[ASN][1000 genomes]
rs17319929	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17320006	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17375746	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57249968	1.00[ASN][1000 genomes]
rs57561694	1.00[ASN][1000 genomes]
rs58526463	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59871933	1.00[ASN][1000 genomes]
rs62238355	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62238356	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62238357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62238368	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62238369	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62238370	1.00[ASN][1000 genomes]
rs62238371	1.00[ASN][1000 genomes]
rs62240080	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240081	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240082	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240083	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240084	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62240086	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240087	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240088	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240089	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240090	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240091	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240113	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240115	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240117	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62240119	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767115	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797938	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6798364	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6800973	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72877063	1.00[ASN][1000 genomes]
rs802773	0.96[EUR][1000 genomes];1.00[ASN][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	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59927200-59938400	Weak transcription	Fetal Thymus	thymus
2	chr3:59927600-59940200	Weak transcription	Thymus	Thymus
3	chr3:59928000-59937200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr3:59928400-59938200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr3:59928800-59942800	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr3:59933200-59942800	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:59934000-59936600	Weak transcription	Dnd41	blood
8	chr3:59935000-59936800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr3:59935800-59940000	Strong transcription	Primary T cells from cord blood	blood

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