Variant report

Variant	rs662910
Chromosome Location	chr3:59859953-59859954
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1084008	0.93[CEU][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17493	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs1872495	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs2629885	0.84[EUR][1000 genomes]
rs4679614	0.93[CEU][hapmap];0.82[EUR][1000 genomes]
rs4679615	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs587775	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs598678	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs608582	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs650247	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs675411	0.85[EUR][1000 genomes]
rs675774	0.85[EUR][1000 genomes]
rs684753	1.00[CEU][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	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
3	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv460565	chr3:59842644-59877988	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv470616	chr3:59842644-59877988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv590385	chr3:59842644-59877988	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv590386	chr3:59846067-59912377	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59850000-59864000	Weak transcription	Fetal Thymus	thymus
2	chr3:59854800-59867000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr3:59854800-59870800	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr3:59855000-59865200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:59856800-59860200	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr3:59858000-59865800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:59858200-59865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr3:59858600-59863000	Strong transcription	Dnd41	blood
9	chr3:59859000-59861400	Strong transcription	Primary T cells from cord blood	blood
10	chr3:59859200-59860000	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr3:59859400-59860200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:59859400-59864800	Weak transcription	Thymus	Thymus
13	chr3:59859400-59865000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr3:59859600-59860600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr3:59859600-59863000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:59859600-59863000	Weak transcription	NHEK	skin
17	chr3:59859600-59863200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:59859800-59860200	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr3:59859800-59861800	Weak transcription	Primary B cells from cord blood	blood
20	chr3:59859800-59862600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:59859800-59864200	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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