Variant report

Variant	rs62240114
Chromosome Location	chr3:59964443-59964444
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10510821	0.89[ASN][1000 genomes]
rs12152244	0.81[AMR][1000 genomes]
rs17031569	0.89[ASN][1000 genomes]
rs17061546	0.89[ASN][1000 genomes]
rs17061598	0.89[ASN][1000 genomes]
rs17061678	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17061683	0.83[AMR][1000 genomes]
rs17061684	0.83[AMR][1000 genomes]
rs17061689	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2687898	0.89[ASN][1000 genomes]
rs3772474	0.89[ASN][1000 genomes]
rs3772487	0.81[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs3772489	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs3772503	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3821484	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55804635	0.84[AFR][1000 genomes]
rs57561694	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58731594	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59871933	0.83[AMR][1000 genomes]
rs60590275	0.84[AFR][1000 genomes]
rs60751140	0.89[ASN][1000 genomes]
rs72877030	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs72877033	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs72877036	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7626013	0.89[ASN][1000 genomes]
rs9815985	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
4	nsv876838	chr3:59952152-59999690	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59961600-59969000	Enhancers	Primary T helper cells PMA-I stimulated	--
2	chr3:59962000-59964600	Weak transcription	Dnd41	blood
3	chr3:59962800-59964600	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr3:59963000-59969400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr3:59963800-59964800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr3:59964000-59967800	Enhancers	Primary T cells from cord blood	blood
7	chr3:59964200-59967400	Enhancers	Fetal Thymus	thymus
8	chr3:59964400-59964600	Enhancers	GM12878-XiMat	blood
9	chr3:59964400-59965000	Enhancers	Primary T cells fromperipheralblood	blood
10	chr3:59964400-59967400	Enhancers	Thymus	Thymus
11	chr3:59964400-59968400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr3:59964400-59970600	Enhancers	Primary T helper naive cells from peripheral blood	blood

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