Variant report

Variant	rs3764230
Chromosome Location	chr15:52665317-52665318
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10518683	1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1104800	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1108808	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12101973	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12913979	0.96[ASN][1000 genomes]
rs13329278	1.00[JPT][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13329402	1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13329500	1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1669870	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1669872	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs16964891	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16964910	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16964915	1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16964919	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16964921	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16964924	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16964928	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2242059	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2414137	1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2414138	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2414145	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs28367336	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28374631	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28409636	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28409760	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28462026	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28475475	1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28479614	1.00[AMR][1000 genomes]
rs28496242	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28503750	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28508266	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28514341	1.00[AMR][1000 genomes]
rs28532168	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28556657	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28590330	1.00[AMR][1000 genomes]
rs28594692	1.00[AMR][1000 genomes]
rs28618215	1.00[AMR][1000 genomes]
rs28633243	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28650960	1.00[AMR][1000 genomes]
rs28653534	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28657676	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28669685	1.00[AMR][1000 genomes]
rs28693941	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28756182	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4499185	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs4624108	1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4774620	1.00[JPT][hapmap]
rs4774621	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4987194	1.00[AMR][1000 genomes]
rs58029714	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58812575	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7163242	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7163778	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7164164	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7164872	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7167181	1.00[AMR][1000 genomes]
rs7167437	0.85[ASN][1000 genomes]
rs7167680	1.00[AMR][1000 genomes]
rs7167890	0.91[AMR][1000 genomes]
rs7167916	1.00[AMR][1000 genomes]
rs7168251	1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7169104	0.95[YRI][hapmap];1.00[AMR][1000 genomes]
rs7169346	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs7170622	0.95[YRI][hapmap];1.00[AMR][1000 genomes]
rs7171999	0.96[ASN][1000 genomes]
rs7182148	1.00[AMR][1000 genomes]
rs73408408	1.00[AMR][1000 genomes]
rs73408415	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs73408465	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs73408469	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73408478	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73410713	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs73410715	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs744501	0.94[YRI][hapmap];1.00[AMR][1000 genomes]
rs8023623	1.00[AMR][1000 genomes]
rs8024412	0.83[YRI][hapmap];0.92[AMR][1000 genomes]
rs8024624	1.00[AMR][1000 genomes]
rs8027637	1.00[AMR][1000 genomes]
rs8027777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8030307	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs8035199	1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8040369	1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8040558	0.94[YRI][hapmap];0.81[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs8041819	1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs8042235	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs8042245	0.90[YRI][hapmap];0.92[AMR][1000 genomes]
rs876549	1.00[JPT][hapmap];0.94[YRI][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9744852	1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9920739	1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:52611800-52675800	Weak transcription	Gastric	stomach
3	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
4	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
5	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
7	chr15:52632600-52670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:52638000-52671600	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:52640600-52666600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr15:52641800-52666800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:52644000-52666600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr15:52644200-52680800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr15:52644600-52665400	Weak transcription	A549	lung
14	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
15	chr15:52647400-52690600	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr15:52649000-52687200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr15:52649600-52670600	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr15:52649600-52677600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr15:52649800-52676400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr15:52650000-52670200	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr15:52650000-52670400	Strong transcription	HUVEC	blood vessel
22	chr15:52650200-52669200	Strong transcription	Primary B cells from cord blood	blood
23	chr15:52650400-52666800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:52651000-52666600	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr15:52652200-52670400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr15:52653400-52666600	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr15:52653400-52666800	Weak transcription	Aorta	Aorta
28	chr15:52653600-52677400	Weak transcription	Colonic Mucosa	Colon
29	chr15:52654400-52666400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:52654400-52666400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr15:52655000-52666600	Weak transcription	Osteobl	bone
32	chr15:52655800-52665800	Weak transcription	Fetal Thymus	thymus
33	chr15:52655800-52666400	Weak transcription	Liver	Liver
34	chr15:52655800-52675200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr15:52656200-52666600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:52656800-52674000	Strong transcription	Primary T cells from cord blood	blood
37	chr15:52657400-52670000	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr15:52657800-52666600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr15:52658400-52687200	Weak transcription	Small Intestine	intestine
40	chr15:52658800-52666600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr15:52659000-52676600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr15:52659000-52676600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr15:52659200-52669000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr15:52659200-52669200	Strong transcription	Adipose Nuclei	Adipose
45	chr15:52659200-52671800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr15:52659200-52676400	Strong transcription	Stomach Smooth Muscle	stomach
47	chr15:52659200-52676600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr15:52659200-52676800	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr15:52659200-52677000	Strong transcription	Duodenum Smooth Muscle	Duodenum
50	chr15:52659400-52676600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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