Variant report

Variant	rs13100563
Chromosome Location	chr3:60062025-60062026
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13062539	0.88[EUR][1000 genomes]
rs13084717	0.88[EUR][1000 genomes]
rs17062101	1.00[CEU][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17062179	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs17257269	0.81[CEU][hapmap]
rs17258256	0.81[CEU][hapmap];0.89[EUR][1000 genomes]
rs17258709	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17258872	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34603508	0.88[EUR][1000 genomes]
rs35037895	0.87[EUR][1000 genomes]
rs35226385	0.80[EUR][1000 genomes]
rs35755790	1.00[EUR][1000 genomes]
rs3856662	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs4345028	0.90[EUR][1000 genomes]
rs67030566	0.89[EUR][1000 genomes]
rs6779716	0.81[EUR][1000 genomes]
rs6779755	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs67984492	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73093924	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73093941	0.98[EUR][1000 genomes]

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	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
5	nsv520108	chr3:60059041-60062939	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv523496	chr3:60059041-60064296	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60051800-60063000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:60059400-60062200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
3	chr3:60059800-60064800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:60061000-60064000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
5	chr3:60061400-60062400	Active TSS	Primary T helper naive cells from peripheral blood	blood
6	chr3:60061400-60062800	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr3:60061400-60063400	Flanking Active TSS	Primary T cells from cord blood	blood
8	chr3:60061600-60062400	Active TSS	Monocytes-CD14+_RO01746	blood
9	chr3:60061600-60062800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:60061600-60063000	Enhancers	Primary B cells from cord blood	blood
11	chr3:60061600-60063200	Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr3:60061800-60062200	Active TSS	Adipose Nuclei	Adipose
13	chr3:60061800-60062200	Active TSS	Right Atrium	heart
14	chr3:60061800-60062400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:60061800-60062400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:60061800-60062400	Flanking Active TSS	Primary hematopoietic stem cells	blood
17	chr3:60061800-60062400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr3:60061800-60062400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:60061800-60062400	Active TSS	Brain Anterior Caudate	brain
20	chr3:60061800-60062400	Active TSS	Duodenum Mucosa	Duodenum
21	chr3:60061800-60062400	Active TSS	Duodenum Smooth Muscle	Duodenum
22	chr3:60061800-60062400	Active TSS	Stomach Smooth Muscle	stomach
23	chr3:60061800-60062600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr3:60061800-60062600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
25	chr3:60061800-60063000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr3:60061800-60064200	Weak transcription	Fetal Thymus	thymus
27	chr3:60061800-60066400	Weak transcription	Brain Substantia Nigra	brain
28	chr3:60061800-60068400	Flanking Active TSS	Dnd41	blood
29	chr3:60062000-60062200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:60062000-60062200	Active TSS	Aorta	Aorta
31	chr3:60062000-60062200	Flanking Active TSS	Brain Hippocampus Middle	brain
32	chr3:60062000-60062400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
33	chr3:60062000-60062400	Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr3:60062000-60062400	Active TSS	Fetal Lung	lung
35	chr3:60062000-60062400	Enhancers	Stomach Mucosa	stomach
36	chr3:60062000-60062400	Active TSS	Thymus	Thymus

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