Variant report

Variant	rs56257507
Chromosome Location	chr3:59940792-59940793
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10510822	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10510823	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17061544	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17254765	0.86[ASN][1000 genomes]
rs17302746	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17302837	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1970842	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2101339	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2630186	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2630190	0.93[ASN][1000 genomes]
rs3772467	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3772485	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3772506	0.86[ASN][1000 genomes]
rs3772507	0.86[ASN][1000 genomes]
rs3772508	0.86[ASN][1000 genomes]
rs3821485	0.88[ASN][1000 genomes]
rs4679508	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4679623	0.83[ASN][1000 genomes]
rs4679624	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55659096	0.83[ASN][1000 genomes]
rs55910136	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57347814	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61614530	0.88[AMR][1000 genomes]
rs7643828	0.81[ASN][1000 genomes]
rs802771	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9862003	0.88[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	chr3:59928800-59942800	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr3:59933200-59942800	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:59936600-59945600	Strong transcription	Dnd41	blood
4	chr3:59939400-59941400	Weak transcription	Fetal Thymus	thymus
5	chr3:59939600-59942200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr3:59939600-59942800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr3:59940000-59940800	Strong transcription	Primary T helper cells PMA-I stimulated	--
8	chr3:59940000-59941200	Weak transcription	Primary T cells from cord blood	blood
9	chr3:59940400-59941800	Weak transcription	Thymus	Thymus

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