Variant report

Variant	rs17061708
Chromosome Location	chr3:59981976-59981977
allele	A/G
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:24)

rs_ID	r²[population]
rs12495662	0.80[MEX][hapmap]
rs12497400	0.93[MEX][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes]
rs17031569	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs17061546	1.00[JPT][hapmap]
rs17061598	1.00[JPT][hapmap]
rs17061678	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17061689	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17061716	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17254574	1.00[MEX][hapmap];0.81[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17255191	0.81[EUR][1000 genomes]
rs3772474	1.00[JPT][hapmap]
rs3772487	1.00[JPT][hapmap]
rs3772489	1.00[JPT][hapmap]
rs3772503	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3772504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821484	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs58024458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62238369	0.83[EUR][1000 genomes]
rs62238370	0.86[EUR][1000 genomes]
rs62238371	0.86[EUR][1000 genomes]
rs6800973	0.80[MEX][hapmap]
rs72877063	0.80[EUR][1000 genomes]
rs7612646	0.80[MEX][hapmap]
rs7626013	1.00[CHD][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv876838	chr3:59952152-59999690	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv590389	chr3:59981525-59998389	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59967400-59993000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:59968000-59986600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:59968400-59982600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:59972800-59983600	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr3:59974200-59983000	Enhancers	Fetal Thymus	thymus
6	chr3:59974400-59983000	Enhancers	Thymus	Thymus
7	chr3:59975200-59984000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:59976800-59984000	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr3:59977200-59983800	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr3:59978200-59985000	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr3:59978400-59984600	Enhancers	Primary T cells from cord blood	blood
12	chr3:59978800-59983400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr3:59980600-59982800	Enhancers	Fetal Lung	lung
14	chr3:59980600-59983200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:59980600-59992800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr3:59980800-59982800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr3:59980800-59983800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:59980800-59983800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr3:59981000-59983400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr3:59981200-59983400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr3:59981400-59982000	Enhancers	Primary T cells fromperipheralblood	blood
22	chr3:59981600-59982600	Weak transcription	Dnd41	blood

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