Variant report

Variant	rs59431794
Chromosome Location	chr15:39719282-39719283
allele	G/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:32)

rs_ID	r²[population]
rs11070204	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1158918	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11633970	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11857561	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12438465	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12593294	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12899217	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1812583	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1947782	0.83[ASN][1000 genomes]
rs1993892	0.83[ASN][1000 genomes]
rs1993893	0.80[ASN][1000 genomes]
rs2086166	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2127029	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2411293	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34329697	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4244571	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4486853	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4924361	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4924363	0.84[ASN][1000 genomes]
rs60697424	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6492888	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7171244	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7178351	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7180041	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7350779	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs74008200	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74010438	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8030260	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8032900	0.87[ASN][1000 genomes]
rs8033214	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9888722	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9920539	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]

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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1042824	chr15:39676039-39757222	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv542362	chr15:39676039-39757222	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1052908	chr15:39692049-39750193	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1044082	chr15:39693241-39750193	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1036091	chr15:39699841-39750193	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39712600-39724200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr15:39713000-39721800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr15:39713200-39727400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:39718600-39720200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr15:39718800-39719400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr15:39718800-39719400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:39718800-39719400	Enhancers	Duodenum Mucosa	Duodenum
8	chr15:39718800-39719600	Enhancers	Primary B cells from peripheral blood	blood
9	chr15:39718800-39719600	Flanking Active TSS	Primary T cells from cord blood	blood
10	chr15:39718800-39719600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
11	chr15:39718800-39719600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
12	chr15:39718800-39720000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr15:39718800-39720000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
14	chr15:39718800-39720000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
15	chr15:39718800-39720000	Enhancers	Right Atrium	heart
16	chr15:39718800-39720000	Flanking Active TSS	GM12878-XiMat	blood
17	chr15:39718800-39720200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:39718800-39720200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr15:39718800-39720200	Enhancers	Lung	lung
20	chr15:39718800-39720200	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr15:39718800-39720400	Enhancers	Dnd41	blood
22	chr15:39718800-39720600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr15:39718800-39720600	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr15:39719000-39719400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:39719000-39719400	Flanking Active TSS	Primary hematopoietic stem cells	blood
26	chr15:39719000-39719400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
27	chr15:39719000-39719400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr15:39719000-39719600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
29	chr15:39719000-39719600	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr15:39719000-39719600	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
31	chr15:39719000-39719600	Enhancers	Right Ventricle	heart
32	chr15:39719000-39719600	Flanking Active TSS	NH-A	brain
33	chr15:39719000-39719800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
34	chr15:39719000-39719800	Active TSS	Stomach Smooth Muscle	stomach
35	chr15:39719000-39719800	Flanking Active TSS	HSMMtube	muscle
36	chr15:39719000-39719800	Flanking Active TSS	Osteobl	bone
37	chr15:39719000-39720000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:39719000-39720000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
39	chr15:39719000-39720000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr15:39719000-39720200	Enhancers	Fetal Muscle Leg	muscle
41	chr15:39719000-39720400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr15:39719000-39720800	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr15:39719000-39721600	Enhancers	Fetal Lung	lung
44	chr15:39719200-39719400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
45	chr15:39719200-39719400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr15:39719200-39719400	Enhancers	Brain Angular Gyrus	brain
47	chr15:39719200-39719400	Flanking Bivalent TSS/Enh	Brain Dorsolateral Prefrontal Cortex	brain
48	chr15:39719200-39719400	Flanking Active TSS	Colon Smooth Muscle	Colon
49	chr15:39719200-39719400	Enhancers	Fetal Muscle Trunk	muscle
50	chr15:39719200-39719400	Flanking Active TSS	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links