Variant report

Variant	rs73019099
Chromosome Location	chr3:150917742-150917743
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12106682	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12631155	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16863173	1.00[EUR][1000 genomes]
rs16863204	0.81[AFR][1000 genomes]
rs16863219	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16863227	0.81[AFR][1000 genomes]
rs16863248	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16863250	1.00[EUR][1000 genomes]
rs2870415	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3821666	1.00[EUR][1000 genomes]
rs3960212	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41526246	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41526349	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58321514	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60620665	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60816259	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60966250	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6440723	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6440725	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6767615	1.00[EUR][1000 genomes]
rs6774659	1.00[EUR][1000 genomes]
rs6776934	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6777211	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6787551	1.00[EUR][1000 genomes]
rs6790244	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6790349	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6794447	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73009177	1.00[EUR][1000 genomes]
rs73012977	1.00[EUR][1000 genomes]
rs73012978	1.00[EUR][1000 genomes]
rs73012986	1.00[EUR][1000 genomes]
rs73012988	1.00[EUR][1000 genomes]
rs73012992	1.00[EUR][1000 genomes]
rs73013000	1.00[EUR][1000 genomes]
rs73014806	1.00[EUR][1000 genomes]
rs73014871	1.00[EUR][1000 genomes]
rs73014873	1.00[EUR][1000 genomes]
rs73016712	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73016789	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73018620	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73019093	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021108	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021116	1.00[EUR][1000 genomes]
rs73021122	0.83[AMR][1000 genomes]
rs73021129	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021144	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7618087	1.00[EUR][1000 genomes]
rs7638986	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7653225	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
2	chr3:150890600-150923400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr3:150896200-150927800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:150896600-150918200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:150901200-150917800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:150901800-150918000	Strong transcription	Primary neutrophils fromperipheralblood	blood
7	chr3:150908800-150933200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:150909000-150918800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:150911600-150918600	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:150911800-150928600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:150912000-150917800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr3:150915400-150920800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:150915800-150918600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:150916200-150918800	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
15	chr3:150916400-150919000	Enhancers	HepG2	liver
16	chr3:150916800-150918000	Transcr. at gene 5' and 3'	Primary T cells from cord blood	blood
17	chr3:150916800-150919000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr3:150917000-150917800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:150917000-150918400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr3:150917000-150918800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr3:150917000-150919200	Weak transcription	Liver	Liver
22	chr3:150917000-150919200	Weak transcription	Duodenum Mucosa	Duodenum
23	chr3:150917000-150931600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:150917200-150917800	Enhancers	Dnd41	blood
25	chr3:150917200-150918000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
26	chr3:150917200-150918200	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr3:150917200-150920800	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
28	chr3:150917400-150918000	Enhancers	Thymus	Thymus
29	chr3:150917400-150918800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:150917400-150919600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
31	chr3:150917600-150917800	Enhancers	Primary T cells fromperipheralblood	blood
32	chr3:150917600-150917800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr3:150917600-150917800	Transcr. at gene 5' and 3'	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr3:150917600-150917800	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr3:150917600-150918000	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr3:150917600-150918000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:150917600-150918200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:150917600-150918400	Weak transcription	Fetal Lung	lung
39	chr3:150917600-150918800	Enhancers	Fetal Thymus	thymus
40	chr3:150917600-150919000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links