Variant report

Variant	rs13081972
Chromosome Location	chr3:59940838-59940839
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10490808	1.00[CEU][hapmap];0.81[GIH][hapmap];0.88[MEX][hapmap];0.94[MKK][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11130742	1.00[CEU][hapmap];0.88[MEX][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11130743	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12630463	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13061337	0.81[EUR][1000 genomes]
rs13063413	0.91[CEU][hapmap];0.86[GIH][hapmap];0.94[MEX][hapmap];0.86[MKK][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13073897	0.83[EUR][1000 genomes]
rs13081936	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088505	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13092173	0.94[CEU][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13092997	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13094437	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13096138	0.95[CEU][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs212014	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2736791	0.88[EUR][1000 genomes]
rs3772458	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3772468	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3772473	0.95[CEU][hapmap];0.88[YRI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3772483	1.00[CEU][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3772491	1.00[CEU][hapmap];0.88[MEX][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3772492	1.00[CEU][hapmap];0.88[MEX][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3772499	1.00[CEU][hapmap];0.94[MEX][hapmap];0.81[MKK][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3772500	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3772502	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3772505	0.91[CEU][hapmap];0.84[MKK][hapmap];0.83[EUR][1000 genomes]
rs3821478	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3821479	0.95[CEU][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3821481	1.00[CEU][hapmap];0.88[MEX][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6446101	0.84[CEU][hapmap];0.86[EUR][1000 genomes]
rs6771484	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6784057	0.87[CEU][hapmap];0.84[MKK][hapmap];0.83[EUR][1000 genomes]
rs7640107	1.00[CEU][hapmap];0.81[GIH][hapmap];0.88[MEX][hapmap];0.87[AMR][1000 genomes];0.96[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	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	chr3:59940000-59941200	Weak transcription	Primary T cells from cord blood	blood
8	chr3:59940400-59941800	Weak transcription	Thymus	Thymus
9	chr3:59940800-59941200	Genic enhancers	Primary T helper cells PMA-I stimulated	--

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