Variant report

Variant	rs28623164
Chromosome Location	chr19:37913453-37913454
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 128 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs1015848	0.95[EUR][1000 genomes]
rs1015849	0.95[EUR][1000 genomes]
rs1035479	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10403582	0.91[EUR][1000 genomes]
rs10403613	0.84[EUR][1000 genomes]
rs10404602	0.83[EUR][1000 genomes]
rs10404920	0.86[EUR][1000 genomes]
rs10404945	0.83[EUR][1000 genomes]
rs10405064	0.86[EUR][1000 genomes]
rs10405325	0.90[EUR][1000 genomes]
rs10405407	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10406177	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10407084	0.95[EUR][1000 genomes]
rs10409204	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10411574	0.87[EUR][1000 genomes]
rs10412043	0.84[EUR][1000 genomes]
rs10413602	0.92[EUR][1000 genomes]
rs10414904	0.85[EUR][1000 genomes]
rs10415024	0.83[EUR][1000 genomes]
rs10415358	0.83[EUR][1000 genomes]
rs10415937	0.85[EUR][1000 genomes]
rs10417503	0.84[EUR][1000 genomes]
rs10417844	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10420430	0.92[EUR][1000 genomes]
rs10420722	0.90[EUR][1000 genomes]
rs10420754	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10422074	0.92[EUR][1000 genomes]
rs10422423	0.84[EUR][1000 genomes]
rs10422667	0.95[EUR][1000 genomes]
rs10422967	0.84[EUR][1000 genomes]
rs10424574	0.83[EUR][1000 genomes]
rs10426618	0.95[EUR][1000 genomes]
rs10426666	0.83[EUR][1000 genomes]
rs10426699	0.83[EUR][1000 genomes]
rs11083426	0.83[EUR][1000 genomes]
rs11671972	0.89[ASN][1000 genomes]
rs12104380	0.84[EUR][1000 genomes]
rs12104381	0.82[EUR][1000 genomes]
rs12709813	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12972252	0.95[EUR][1000 genomes]
rs12979470	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12981532	0.92[EUR][1000 genomes]
rs13343471	0.97[EUR][1000 genomes]
rs13343485	0.85[EUR][1000 genomes]
rs13343502	0.93[EUR][1000 genomes]
rs13345116	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13345148	0.83[EUR][1000 genomes]
rs1373991	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1382357	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1559229	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2045908	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2081096	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2112920	0.81[EUR][1000 genomes]
rs2112922	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2112923	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2126977	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2279148	0.82[EUR][1000 genomes]
rs2279149	0.82[EUR][1000 genomes]
rs2291004	0.86[EUR][1000 genomes]
rs2303131	0.97[EUR][1000 genomes]
rs28373708	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28402338	0.84[EUR][1000 genomes]
rs28538699	0.93[EUR][1000 genomes]
rs28605784	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2891699	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35085437	0.84[EUR][1000 genomes]
rs35540940	0.86[EUR][1000 genomes]
rs35777021	0.97[EUR][1000 genomes]
rs3745765	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3760825	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3803895	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4417644	0.84[EUR][1000 genomes]
rs4452075	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4801759	0.95[EUR][1000 genomes]
rs4801803	0.93[EUR][1000 genomes]
rs4802766	0.91[EUR][1000 genomes]
rs4802889	0.88[EUR][1000 genomes]
rs4803195	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4803229	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4803347	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4803460	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4803539	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4969487	0.84[EUR][1000 genomes]
rs59224125	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62110394	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6508711	0.85[EUR][1000 genomes]
rs6508716	0.83[EUR][1000 genomes]
rs6508719	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6508732	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6508733	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs713256	0.88[EUR][1000 genomes]
rs7246993	0.92[EUR][1000 genomes]
rs7247259	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7248733	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7252099	0.97[EUR][1000 genomes]
rs7252325	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7252346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7253091	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7253114	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7255407	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7255785	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7255952	0.89[EUR][1000 genomes]
rs7255972	0.97[EUR][1000 genomes]
rs7255996	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7256130	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7257495	0.83[EUR][1000 genomes]
rs7257672	0.83[EUR][1000 genomes]
rs7258692	0.83[EUR][1000 genomes]
rs7259968	0.85[EUR][1000 genomes]
rs73631095	0.89[EUR][1000 genomes]
rs7408133	0.83[EUR][1000 genomes]
rs7408563	0.83[EUR][1000 genomes]
rs8106839	0.96[EUR][1000 genomes]
rs8109038	0.83[EUR][1000 genomes]
rs8109632	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8111782	0.86[EUR][1000 genomes]
rs8112610	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9304566	0.84[EUR][1000 genomes]
rs9676739	0.89[EUR][1000 genomes]
rs9676967	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9917081	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1057688	chr19:37828019-37988253	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv579465	chr19:37868552-37917692	ZNF genes & repeats Strong transcription Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv963044	chr19:37893588-37916743	ZNF genes & repeats Weak transcription Strong transcription Active TSS	lncRNA	n/a	inside rSNPs	diseases
7	nsv833819	chr19:37899501-38051599	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37898000-37927000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr19:37898000-37956400	ZNF genes & repeats	Liver	Liver
3	chr19:37899200-37918800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr19:37900200-37927000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr19:37903200-37925000	ZNF genes & repeats	Primary T cells from cord blood	blood
6	chr19:37903200-37927200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr19:37903200-37936600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr19:37903400-37936400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
9	chr19:37906400-37914000	ZNF genes & repeats	Left Ventricle	heart
10	chr19:37906600-37913800	ZNF genes & repeats	Ovary	ovary
11	chr19:37906600-37913800	ZNF genes & repeats	Psoas Muscle	Psoas
12	chr19:37906800-37915400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
13	chr19:37906800-37918000	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr19:37906800-37927000	ZNF genes & repeats	Fetal Brain Female	brain
15	chr19:37906800-37936600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
16	chr19:37907600-37925000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
17	chr19:37907600-37926600	ZNF genes & repeats	Primary B cells from peripheral blood	blood
18	chr19:37907800-37915600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
19	chr19:37907800-37926000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
20	chr19:37908000-37913800	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
21	chr19:37909200-37919400	ZNF genes & repeats	Fetal Lung	lung
22	chr19:37910600-37925000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
23	chr19:37910800-37956000	ZNF genes & repeats	Adipose Nuclei	Adipose
24	chr19:37911000-37913600	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
25	chr19:37911000-37913800	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
26	chr19:37911000-37915600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
27	chr19:37911000-37926400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
28	chr19:37911000-37927000	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
29	chr19:37911200-37913600	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
30	chr19:37911200-37913800	ZNF genes & repeats	Primary T helper naive cells from peripheral blood	blood
31	chr19:37911200-37913800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr19:37911200-37913800	ZNF genes & repeats	Brain Germinal Matrix	brain
33	chr19:37911200-37913800	ZNF genes & repeats	Fetal Brain Male	brain
34	chr19:37911200-37913800	ZNF genes & repeats	Fetal Kidney	kidney
35	chr19:37911200-37913800	ZNF genes & repeats	Stomach Smooth Muscle	stomach
36	chr19:37911200-37913800	ZNF genes & repeats	A549	lung
37	chr19:37911200-37914000	ZNF genes & repeats	Rectal Smooth Muscle	rectum
38	chr19:37911200-37915200	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr19:37911200-37915400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr19:37911200-37915400	ZNF genes & repeats	Primary B cells from cord blood	blood
41	chr19:37911200-37915400	ZNF genes & repeats	Brain Anterior Caudate	brain
42	chr19:37911200-37919000	ZNF genes & repeats	Brain Hippocampus Middle	brain
43	chr19:37911200-37925000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr19:37911200-37926600	ZNF genes & repeats	Brain Substantia Nigra	brain
45	chr19:37911200-37927000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
46	chr19:37911200-37927000	ZNF genes & repeats	Dnd41	blood
47	chr19:37911200-37936600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
48	chr19:37911200-37936600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
49	chr19:37911200-37954600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
50	chr19:37911400-37913600	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain

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