Variant report

Variant	rs17025352
Chromosome Location	chr2:40391907-40391908
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: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1035160	0.87[AMR][1000 genomes]
rs17025364	0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs17025386	1.00[MEX][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs17025489	1.00[AMR][1000 genomes]
rs17025531	1.00[AMR][1000 genomes]
rs17038990	1.00[YRI][hapmap];0.87[AMR][1000 genomes]
rs434795	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 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
8	nsv873910	chr2:40391907-40466268	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS 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	chr2:40375600-40401800	Weak transcription	HSMMtube	muscle
7	chr2:40376800-40394200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr2:40378000-40399000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr2:40378200-40392000	Weak transcription	Gastric	stomach
10	chr2:40379200-40393400	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr2:40381600-40398800	Weak transcription	Brain Angular Gyrus	brain
12	chr2:40381800-40395200	Weak transcription	Spleen	Spleen
13	chr2:40382400-40392800	Strong transcription	Dnd41	blood
14	chr2:40383000-40392400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr2:40383400-40392200	Weak transcription	Aorta	Aorta
16	chr2:40383400-40392600	Strong transcription	HSMM	muscle
17	chr2:40384200-40392200	Weak transcription	Fetal Kidney	kidney
18	chr2:40386000-40395200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr2:40386000-40395200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr2:40386400-40392200	Weak transcription	Fetal Brain Male	brain
21	chr2:40386400-40392200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr2:40386400-40395200	Weak transcription	Fetal Intestine Large	intestine
23	chr2:40387200-40392800	Strong transcription	Muscle Satellite Cultured Cells	--
24	chr2:40388400-40396400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:40388600-40395200	Weak transcription	Duodenum Mucosa	Duodenum
26	chr2:40389200-40392000	Strong transcription	Fetal Brain Female	brain
27	chr2:40389200-40392000	Strong transcription	Osteobl	bone
28	chr2:40389400-40396200	Weak transcription	Placenta	Placenta
29	chr2:40389600-40392200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr2:40389600-40393000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr2:40390600-40392000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr2:40390600-40395200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr2:40390800-40392000	Weak transcription	Right Atrium	heart
34	chr2:40390800-40395200	Weak transcription	Fetal Intestine Small	intestine
35	chr2:40391200-40392000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr2:40391200-40392000	Strong transcription	Brain Anterior Caudate	brain
37	chr2:40391400-40392000	Weak transcription	Colon Smooth Muscle	Colon
38	chr2:40391400-40393400	Enhancers	Fetal Muscle Leg	muscle
39	chr2:40391600-40392000	Genic enhancers	Rectal Smooth Muscle	rectum
40	chr2:40391600-40392200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr2:40391600-40392200	Enhancers	Primary neutrophils fromperipheralblood	blood
42	chr2:40391600-40393400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr2:40391600-40397600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr2:40391800-40392000	Genic enhancers	Left Ventricle	heart
45	chr2:40391800-40392000	Enhancers	Small Intestine	intestine
46	chr2:40391800-40392200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr2:40391800-40392200	Enhancers	Fetal Muscle Trunk	muscle
48	chr2:40391800-40392200	Genic enhancers	Fetal Stomach	stomach
49	chr2:40391800-40392200	Enhancers	Stomach Smooth Muscle	stomach
50	chr2:40391800-40392400	Enhancers	Adipose Nuclei	Adipose

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