Variant report

Variant	rs6794968
Chromosome Location	chr3:60010550-60010551
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs212027	0.93[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs212028	0.89[ASN][1000 genomes]
rs3856659	0.93[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3912493	0.82[CHD][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6782804	0.83[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6804301	0.81[CEU][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes]
rs9825153	0.86[EUR][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	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	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
5	nsv834707	chr3:60005679-60184046	Weak transcription Enhancers Flanking Active TSS 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	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59996800-60011600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:60000800-60012600	Enhancers	Primary T killer memory cells from peripheral blood	blood
3	chr3:60003600-60012800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr3:60003800-60011200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:60003800-60021200	Weak transcription	Thymus	Thymus
6	chr3:60007000-60014600	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr3:60007400-60016400	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr3:60008000-60014800	Enhancers	Dnd41	blood
9	chr3:60008600-60016400	Enhancers	Primary T cells from cord blood	blood
10	chr3:60008800-60010600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr3:60008800-60017400	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr3:60009400-60010600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr3:60009400-60010600	Weak transcription	Aorta	Aorta
14	chr3:60009400-60011200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:60009400-60011200	Weak transcription	Colon Smooth Muscle	Colon
16	chr3:60009400-60011200	Weak transcription	Rectal Smooth Muscle	rectum
17	chr3:60009400-60011400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr3:60009400-60012200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr3:60009600-60011000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:60009600-60011400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr3:60010400-60010800	Enhancers	Primary T cells fromperipheralblood	blood
22	chr3:60010400-60010800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr3:60010400-60012000	Enhancers	Fetal Kidney	kidney
24	chr3:60010400-60012000	Enhancers	Fetal Thymus	thymus

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