Variant report

Variant	rs13019628
Chromosome Location	chr2:40391699-40391700
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:40390508..40393940-chr2:40401107..40404487,3	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12988544	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13010488	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs13012123	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs13017294	1.00[AMR][1000 genomes]
rs13021278	1.00[AMR][1000 genomes]
rs13029172	1.00[AMR][1000 genomes]
rs13033538	1.00[AMR][1000 genomes]
rs34078731	1.00[AMR][1000 genomes]
rs34210996	1.00[AMR][1000 genomes]
rs34238309	1.00[AMR][1000 genomes]
rs34303202	1.00[AMR][1000 genomes]
rs34658168	1.00[AMR][1000 genomes]
rs34661498	1.00[AMR][1000 genomes]
rs34681150	1.00[AMR][1000 genomes]
rs34771893	1.00[AMR][1000 genomes]
rs35372653	1.00[AMR][1000 genomes]
rs35432865	1.00[AMR][1000 genomes]
rs35720948	1.00[AMR][1000 genomes]
rs35746759	1.00[AMR][1000 genomes]
rs35774927	1.00[AMR][1000 genomes]
rs61009582	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71439276	1.00[AMR][1000 genomes]
rs71439277	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv873902	chr2:40231282-40466268	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1004092	chr2:40264608-40451701	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1000572	chr2:40271958-40458911	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv535654	chr2:40271958-40458911	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv581502	chr2:40273903-40459645	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv873904	chr2:40292289-40466268	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40357800-40406400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:40358000-40392200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr2:40358200-40392200	Weak transcription	NHLF	lung
4	chr2:40365200-40396200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr2:40366600-40403000	Weak transcription	Brain Germinal Matrix	brain
6	chr2:40366800-40391800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr2:40371800-40391800	Weak transcription	NHDF-Ad	bronchial
8	chr2:40375600-40401800	Weak transcription	HSMMtube	muscle
9	chr2:40376800-40394200	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr2:40378000-40399000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr2:40378200-40392000	Weak transcription	Gastric	stomach
12	chr2:40379200-40393400	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr2:40381200-40391800	Weak transcription	Adipose Nuclei	Adipose
14	chr2:40381600-40398800	Weak transcription	Brain Angular Gyrus	brain
15	chr2:40381800-40395200	Weak transcription	Spleen	Spleen
16	chr2:40382400-40392800	Strong transcription	Dnd41	blood
17	chr2:40382600-40391800	Strong transcription	Left Ventricle	heart
18	chr2:40383000-40392400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr2:40383400-40392200	Weak transcription	Aorta	Aorta
20	chr2:40383400-40392600	Strong transcription	HSMM	muscle
21	chr2:40384200-40392200	Weak transcription	Fetal Kidney	kidney
22	chr2:40384600-40391800	Weak transcription	Right Ventricle	heart
23	chr2:40386000-40395200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr2:40386000-40395200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr2:40386400-40392200	Weak transcription	Fetal Brain Male	brain
26	chr2:40386400-40392200	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr2:40386400-40395200	Weak transcription	Fetal Intestine Large	intestine
28	chr2:40387200-40392800	Strong transcription	Muscle Satellite Cultured Cells	--
29	chr2:40387800-40391800	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr2:40388400-40396400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr2:40388600-40395200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr2:40389000-40391800	Weak transcription	Fetal Lung	lung
33	chr2:40389000-40391800	Weak transcription	Fetal Stomach	stomach
34	chr2:40389000-40391800	Weak transcription	Ovary	ovary
35	chr2:40389200-40392000	Strong transcription	Fetal Brain Female	brain
36	chr2:40389200-40392000	Strong transcription	Osteobl	bone
37	chr2:40389400-40396200	Weak transcription	Placenta	Placenta
38	chr2:40389600-40392200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr2:40389600-40393000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr2:40390200-40391800	Weak transcription	Small Intestine	intestine
41	chr2:40390400-40391800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr2:40390600-40392000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr2:40390600-40395200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr2:40390800-40392000	Weak transcription	Right Atrium	heart
45	chr2:40390800-40395200	Weak transcription	Fetal Intestine Small	intestine
46	chr2:40391200-40391800	Enhancers	Fetal Thymus	thymus
47	chr2:40391200-40391800	Genic enhancers	Stomach Smooth Muscle	stomach
48	chr2:40391200-40392000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr2:40391200-40392000	Strong transcription	Brain Anterior Caudate	brain
50	chr2:40391400-40391800	Strong transcription	Fetal Heart	heart

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