Variant report

Variant	rs780359
Chromosome Location	chr3:59759414-59759415
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1352020	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2605442	0.82[EUR][1000 genomes]
rs2629880	1.00[ASN][1000 genomes]
rs517711	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs629627	0.80[EUR][1000 genomes]
rs673870	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780344	0.87[EUR][1000 genomes]
rs780346	0.85[EUR][1000 genomes]
rs780347	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780348	0.91[EUR][1000 genomes]
rs780360	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780361	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780362	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780371	1.00[CEU][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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	nsv1003387	chr3:59756364-59831340	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59755600-59761400	Enhancers	Fetal Thymus	thymus
2	chr3:59756200-59760400	Enhancers	Primary hematopoietic stem cells	blood
3	chr3:59756400-59761200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:59756600-59761200	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:59756800-59763600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:59757000-59759600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:59757200-59760000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:59757200-59760200	Enhancers	Primary T cells fromperipheralblood	blood
9	chr3:59757200-59761200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:59757400-59760000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr3:59757600-59759600	Enhancers	Primary B cells from peripheral blood	blood
12	chr3:59757800-59762200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:59758000-59759600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
14	chr3:59758000-59759600	Flanking Active TSS	Dnd41	blood
15	chr3:59758000-59759600	Enhancers	GM12878-XiMat	blood
16	chr3:59758000-59759800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr3:59758000-59760000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:59758000-59760400	Weak transcription	NHEK	skin
19	chr3:59758000-59761200	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr3:59758200-59759800	Weak transcription	NHDF-Ad	bronchial
21	chr3:59758200-59760000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:59758400-59759800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr3:59758400-59759800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr3:59758400-59759800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:59758400-59760000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr3:59758400-59760000	Weak transcription	A549	lung
27	chr3:59758600-59759800	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr3:59758800-59759800	Weak transcription	HMEC	breast
29	chr3:59758800-59759800	Weak transcription	Osteobl	bone
30	chr3:59758800-59760000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr3:59758800-59760800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:59759000-59759600	Weak transcription	NH-A	brain
33	chr3:59759000-59759800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr3:59759000-59759800	Enhancers	Thymus	Thymus
35	chr3:59759000-59761000	Enhancers	Fetal Brain Male	brain
36	chr3:59759000-59761600	Enhancers	HSMM	muscle
37	chr3:59759000-59762800	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr3:59759200-59759600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
39	chr3:59759200-59759600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr3:59759200-59759800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr3:59759200-59760200	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr3:59759200-59761200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr3:59759200-59761200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:59759200-59761800	Enhancers	Primary T helper cells fromperipheralblood	blood
45	chr3:59759400-59760600	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr3:59759400-59760800	Enhancers	Primary T cells from cord blood	blood
47	chr3:59759400-59760800	Enhancers	Fetal Muscle Leg	muscle
48	chr3:59759400-59761000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
49	chr3:59759400-59761600	Enhancers	HSMMtube	muscle
50	chr3:59759400-59761800	Enhancers	Brain Germinal Matrix	brain

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