Variant report

Variant	rs59908459
Chromosome Location	chr15:42738696-42738697
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12438240	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16973261	0.80[AMR][1000 genomes]
rs2412688	0.83[EUR][1000 genomes]
rs28364393	0.83[EUR][1000 genomes]
rs28745877	1.00[EUR][1000 genomes]
rs3742996	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4923947	0.83[EUR][1000 genomes]
rs4924677	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924679	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4924680	0.89[AMR][1000 genomes]
rs4924682	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55671734	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57734638	0.93[AMR][1000 genomes]
rs57976413	0.83[EUR][1000 genomes]
rs58567518	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59091866	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59206762	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59414917	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60328984	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60634548	0.83[EUR][1000 genomes]
rs61069354	0.83[EUR][1000 genomes]
rs7169767	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171201	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7180315	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7181688	0.80[AMR][1000 genomes]
rs73402745	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73403365	0.83[EUR][1000 genomes]
rs8026817	0.88[AMR][1000 genomes]
rs8036255	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs934876	0.84[AMR][1000 genomes];0.83[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	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv832986	chr15:42587825-42753664	Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv832987	chr15:42627447-42792348	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	esv3334708	chr15:42664344-42827738	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42694600-42750600	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr15:42699200-42741600	Strong transcription	Fetal Muscle Trunk	muscle
3	chr15:42700800-42747200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr15:42701000-42738800	Strong transcription	Duodenum Smooth Muscle	Duodenum
5	chr15:42701200-42766600	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr15:42701600-42744200	Strong transcription	Stomach Smooth Muscle	stomach
7	chr15:42702200-42750200	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr15:42702400-42744200	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr15:42702400-42744200	Strong transcription	Liver	Liver
10	chr15:42702600-42738800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:42702600-42744400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr15:42702800-42744400	Strong transcription	Duodenum Mucosa	Duodenum
13	chr15:42704000-42744400	Strong transcription	Fetal Lung	lung
14	chr15:42704000-42746800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:42704600-42744200	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr15:42705800-42749200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr15:42706400-42744200	Strong transcription	Rectal Mucosa Donor 29	rectum
18	chr15:42707000-42739400	Strong transcription	Left Ventricle	heart
19	chr15:42709800-42747000	Weak transcription	Stomach Mucosa	stomach
20	chr15:42710200-42740200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr15:42711800-42749200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr15:42720400-42759200	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr15:42721000-42744400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr15:42721800-42747400	Strong transcription	HSMM	muscle
25	chr15:42723200-42742000	Weak transcription	Small Intestine	intestine
26	chr15:42724400-42744200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr15:42727400-42745600	Strong transcription	GM12878-XiMat	blood
28	chr15:42729200-42740400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr15:42729600-42739600	Weak transcription	Fetal Kidney	kidney
30	chr15:42730000-42739000	Weak transcription	Pancreas	Pancrea
31	chr15:42730800-42746800	Strong transcription	Hela-S3	cervix
32	chr15:42731400-42740200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr15:42732400-42746200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr15:42732600-42746200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr15:42732800-42744200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:42733000-42741000	Strong transcription	Fetal Intestine Small	intestine
37	chr15:42733000-42745200	Strong transcription	Fetal Stomach	stomach
38	chr15:42733200-42739200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr15:42733200-42741000	Strong transcription	Fetal Intestine Large	intestine
40	chr15:42733200-42744200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr15:42733200-42744200	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr15:42733200-42744200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr15:42733200-42744600	Strong transcription	Cortex derived primary cultured neurospheres	brain
44	chr15:42733200-42747400	Strong transcription	Placenta	Placenta
45	chr15:42733400-42739800	Strong transcription	HSMMtube	muscle
46	chr15:42733400-42741400	Strong transcription	Adipose Nuclei	Adipose
47	chr15:42733400-42744200	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr15:42733400-42744400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr15:42733400-42744400	Strong transcription	Fetal Thymus	thymus
50	chr15:42733400-42744400	Strong transcription	NHDF-Ad	bronchial

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