Variant report

Variant	rs2566839
Chromosome Location	chr15:57222675-57222676
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1652733	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs213154	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2430963	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2435894	0.94[AFR][1000 genomes]
rs2435898	1.00[AMR][1000 genomes]
rs2435900	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2435901	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2435902	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2435904	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2439923	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2543676	1.00[AMR][1000 genomes]
rs2566841	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2566852	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2585074	1.00[AMR][1000 genomes]
rs2585092	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2585096	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2585098	1.00[YRI][hapmap]
rs2585100	1.00[AMR][1000 genomes]
rs2585111	1.00[AMR][1000 genomes]
rs2585119	1.00[AMR][1000 genomes]
rs2585122	1.00[AMR][1000 genomes]
rs2593213	1.00[YRI][hapmap]
rs2593227	1.00[AMR][1000 genomes]
rs2703603	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2703606	1.00[AMR][1000 genomes]
rs2703609	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2703618	1.00[AMR][1000 genomes]
rs2703622	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2733169	1.00[AMR][1000 genomes]
rs2733173	1.00[AMR][1000 genomes]
rs2733186	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2733190	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2733193	1.00[AMR][1000 genomes]
rs2733196	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2920271	1.00[YRI][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57212400-57224800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:57212400-57224800	Weak transcription	Spleen	Spleen
3	chr15:57212400-57230400	Weak transcription	Lung	lung
4	chr15:57212400-57233400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:57212400-57256000	Weak transcription	Pancreas	Pancrea
6	chr15:57212600-57224000	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr15:57212600-57241000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:57212800-57224000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr15:57212800-57227200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr15:57213000-57227400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr15:57213200-57223400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr15:57213200-57256000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr15:57213400-57223200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr15:57213400-57226800	Weak transcription	Brain Germinal Matrix	brain
15	chr15:57214400-57223200	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr15:57215600-57227400	Weak transcription	Fetal Brain Female	brain
17	chr15:57216400-57241800	Weak transcription	Fetal Brain Male	brain
18	chr15:57217200-57224000	Weak transcription	Stomach Mucosa	stomach
19	chr15:57218400-57223200	Enhancers	Brain Angular Gyrus	brain
20	chr15:57218600-57224800	Enhancers	Fetal Heart	heart
21	chr15:57218800-57223200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr15:57218800-57224600	Enhancers	NHLF	lung
23	chr15:57219200-57223400	Weak transcription	Liver	Liver
24	chr15:57219200-57224000	Weak transcription	Fetal Kidney	kidney
25	chr15:57219200-57224000	Weak transcription	Rectal Smooth Muscle	rectum
26	chr15:57219400-57223600	Weak transcription	GM12878-XiMat	blood
27	chr15:57219400-57224000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr15:57219600-57222800	Strong transcription	Primary monocytes fromperipheralblood	blood
29	chr15:57220000-57222800	Genic enhancers	HUES64 Cell Line	embryonic stem cell
30	chr15:57220000-57226000	Enhancers	Fetal Intestine Large	intestine
31	chr15:57220200-57222800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:57220200-57225000	Enhancers	Small Intestine	intestine
33	chr15:57220200-57226200	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr15:57220400-57223000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr15:57220400-57226800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
36	chr15:57220400-57236400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr15:57220600-57223200	Enhancers	Primary T cells from cord blood	blood
38	chr15:57220600-57223200	Enhancers	Hela-S3	cervix
39	chr15:57220600-57224400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:57220600-57224800	Enhancers	Brain Cingulate Gyrus	brain
41	chr15:57220800-57226200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:57221000-57222800	Genic enhancers	HMEC	breast
43	chr15:57221000-57223000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr15:57221000-57224400	Enhancers	Adipose Nuclei	Adipose
45	chr15:57221000-57226000	Enhancers	Duodenum Mucosa	Duodenum
46	chr15:57221000-57226600	Enhancers	Fetal Intestine Small	intestine
47	chr15:57221200-57223200	Genic enhancers	HepG2	liver
48	chr15:57221200-57224600	Enhancers	Colon Smooth Muscle	Colon
49	chr15:57221200-57226600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr15:57221400-57222800	Genic enhancers	HUVEC	blood vessel

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