Variant report

Variant	rs3856665
Chromosome Location	chr3:60029109-60029110
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11130751	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11711227	0.84[AMR][1000 genomes]
rs11716199	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11718208	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11718957	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11718994	0.84[AMR][1000 genomes]
rs11720431	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13062399	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13063836	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13075738	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13081934	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088111	0.84[AMR][1000 genomes]
rs169841	0.81[ASN][1000 genomes]
rs17322850	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs212042	0.83[ASN][1000 genomes]
rs212043	0.84[ASN][1000 genomes]
rs212044	0.82[ASN][1000 genomes]
rs212045	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34476175	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs35122656	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3843360	0.82[EUR][1000 genomes]
rs3845973	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3856663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3856664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3912495	0.85[ASN][1000 genomes]
rs4327338	0.81[EUR][1000 genomes]
rs60458864	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62238444	0.83[EUR][1000 genomes];0.85[ASN][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	nsv834707	chr3:60005679-60184046	Weak transcription Enhancers Flanking Active TSS 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	1 gene(s)	inside rSNPs	diseases
5	nsv876839	chr3:60024084-60039488	Flanking Active TSS Enhancers Genic enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60020200-60030000	Weak transcription	Primary T cells from cord blood	blood
2	chr3:60021000-60031600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr3:60022200-60030000	Weak transcription	Thymus	Thymus
4	chr3:60026600-60033600	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr3:60027000-60030200	Weak transcription	Fetal Thymus	thymus
6	chr3:60027400-60030600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr3:60027600-60030000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr3:60027600-60030800	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr3:60028000-60030400	Strong transcription	Dnd41	blood
10	chr3:60028600-60030400	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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