Variant report

Variant	rs17061494
Chromosome Location	chr3:59920912-59920913
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12492234	0.81[GIH][hapmap]
rs12496762	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13090091	0.85[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1474308	1.00[ASN][1000 genomes]
rs17061699	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17301396	0.81[GIH][hapmap]
rs212017	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs212018	1.00[ASN][1000 genomes]
rs212030	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs212031	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs212033	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2630167	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2687895	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs34272009	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34382742	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35886433	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62238347	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62238352	0.95[EUR][1000 genomes]
rs62238353	0.81[EUR][1000 genomes]
rs62238354	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6446099	1.00[CHB][hapmap]
rs7610652	0.87[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs802777	1.00[ASN][1000 genomes]
rs802779	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9820451	1.00[CHB][hapmap];1.00[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	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
3	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
4	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
5	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:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59914800-59928400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
2	chr3:59915600-59922600	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr3:59915800-59925400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr3:59916200-59921400	Enhancers	Primary T cells from cord blood	blood
5	chr3:59916400-59927000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:59917200-59924600	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:59918800-59925600	Weak transcription	Fetal Thymus	thymus
8	chr3:59919400-59921000	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr3:59919600-59925000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr3:59920400-59921200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
11	chr3:59920600-59921000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr3:59920600-59921200	Flanking Active TSS	GM12878-XiMat	blood
13	chr3:59920800-59921400	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr3:59920800-59921400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr3:59920800-59926200	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:59920800-59928800	Strong transcription	Dnd41	blood

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