Variant report

Variant	rs12979470
Chromosome Location	chr19:37915486-37915487
allele	C/T
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	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[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]
rs10406177	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10407084	0.95[EUR][1000 genomes]
rs10409204	0.97[EUR][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]
rs10420430	0.92[EUR][1000 genomes]
rs10420722	0.90[EUR][1000 genomes]
rs10420754	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[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	0.85[ASN][1000 genomes]
rs12104380	0.84[EUR][1000 genomes]
rs12104381	0.82[EUR][1000 genomes]
rs12709813	0.85[EUR][1000 genomes]
rs12972252	0.95[EUR][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]
rs13345148	0.83[EUR][1000 genomes]
rs1373991	0.85[EUR][1000 genomes]
rs1382357	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1559229	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2045908	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2081096	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2112920	0.81[EUR][1000 genomes]
rs2112922	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2112923	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2126977	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[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	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[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];0.89[ASN][1000 genomes]
rs28623164	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2891699	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[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];0.81[ASN][1000 genomes]
rs3760825	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3803895	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4417644	0.84[EUR][1000 genomes]
rs4452075	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[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]
rs4803229	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4803347	0.85[EUR][1000 genomes]
rs4803460	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4803539	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4969487	0.84[EUR][1000 genomes]
rs59224125	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62110394	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6508711	0.85[EUR][1000 genomes]
rs6508716	0.83[EUR][1000 genomes]
rs6508719	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6508732	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6508733	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs713256	0.88[EUR][1000 genomes]
rs7246993	0.92[EUR][1000 genomes]
rs7247259	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7248733	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7252099	0.97[EUR][1000 genomes]
rs7252325	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7252346	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7253091	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7253114	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7255407	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7255785	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7255952	0.89[EUR][1000 genomes]
rs7255972	0.97[EUR][1000 genomes]
rs7255996	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7256130	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[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	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8111782	0.86[EUR][1000 genomes]
rs8112610	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9304566	0.84[EUR][1000 genomes]
rs9676739	0.89[EUR][1000 genomes]
rs9676967	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[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:97 , 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	chr19:37906800-37918000	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr19:37906800-37927000	ZNF genes & repeats	Fetal Brain Female	brain
11	chr19:37906800-37936600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
12	chr19:37907600-37925000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
13	chr19:37907600-37926600	ZNF genes & repeats	Primary B cells from peripheral blood	blood
14	chr19:37907800-37915600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
15	chr19:37907800-37926000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
16	chr19:37909200-37919400	ZNF genes & repeats	Fetal Lung	lung
17	chr19:37910600-37925000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
18	chr19:37910800-37956000	ZNF genes & repeats	Adipose Nuclei	Adipose
19	chr19:37911000-37915600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
20	chr19:37911000-37926400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
21	chr19:37911000-37927000	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
22	chr19:37911200-37919000	ZNF genes & repeats	Brain Hippocampus Middle	brain
23	chr19:37911200-37925000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr19:37911200-37926600	ZNF genes & repeats	Brain Substantia Nigra	brain
25	chr19:37911200-37927000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
26	chr19:37911200-37927000	ZNF genes & repeats	Dnd41	blood
27	chr19:37911200-37936600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
28	chr19:37911200-37936600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
29	chr19:37911200-37954600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
30	chr19:37911400-37915600	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
31	chr19:37911400-37915600	ZNF genes & repeats	Colon Smooth Muscle	Colon
32	chr19:37911400-37919000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr19:37911400-37919200	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
34	chr19:37911400-37919400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr19:37911400-37923000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
36	chr19:37911400-37925600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr19:37912000-37925000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
38	chr19:37912400-37916400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr19:37912400-37916600	Weak transcription	HSMMtube	muscle
40	chr19:37913000-37916600	Weak transcription	Pancreas	Pancrea
41	chr19:37913200-37915800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr19:37913400-37917000	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr19:37913600-37916400	Weak transcription	Fetal Intestine Small	intestine
44	chr19:37913800-37915800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr19:37913800-37915800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr19:37913800-37916000	Weak transcription	Right Ventricle	heart
47	chr19:37913800-37916400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr19:37914600-37915600	ZNF genes & repeats	Stomach Smooth Muscle	stomach
49	chr19:37914600-37917200	Strong transcription	Placenta Amnion	Placenta Amnion
50	chr19:37914600-37917600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links