Variant report

Variant	rs3845971
Chromosome Location	chr3:60000672-60000673
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11130746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3845970	0.87[ASW][hapmap];0.95[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[LWK][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9816955	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs9817092	0.88[EUR][1000 genomes]
rs9843907	0.92[EUR][1000 genomes]
rs9854540	0.92[ASN][1000 genomes]
rs9861525	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[TSI][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9868731	1.00[GIH][hapmap];0.95[JPT][hapmap]
rs9869016	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs9874888	0.83[CHB][hapmap];0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59996200-60000800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:59996800-60011600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:59997200-60005800	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr3:59997600-60003400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:59997800-60003000	Weak transcription	Primary B cells from peripheral blood	blood
6	chr3:59998400-60002200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:59999000-60005000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:59999200-60001200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr3:59999400-60002200	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr3:59999400-60002400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:59999400-60003000	Weak transcription	Thymus	Thymus
12	chr3:59999400-60003200	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr3:59999600-60000800	Weak transcription	Fetal Thymus	thymus
14	chr3:59999600-60002000	Enhancers	Brain Germinal Matrix	brain
15	chr3:59999600-60002200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr3:60000000-60002200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr3:60000200-60000800	Weak transcription	Dnd41	blood
18	chr3:60000200-60001000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr3:60000200-60001000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr3:60000200-60003600	Enhancers	Primary T cells from cord blood	blood
21	chr3:60000400-60000800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:60000400-60000800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr3:60000600-60001400	Enhancers	Primary T cells fromperipheralblood	blood

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