Variant report

Variant	rs851188
Chromosome Location	chr1:223302854-223302855
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:223254421..223255395-chr1:223302514..223303380,2	MCF-7	breast:
2	chr1:223301561..223303590-chr1:223305260..223306850,2	K562	blood:
3	chr1:223295784..223298223-chr1:223301441..223304262,2	K562	blood:
4	chr1:223301112..223303740-chr1:223305337..223308068,3	MCF-7	breast:
5	chr1:223302425..223303476-chr1:223871639..223872580,3	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10443637	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10443638	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10443639	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10443640	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1100886	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1100887	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12729658	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12748315	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1640840	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1773714	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1773718	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1773726	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1773727	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1773729	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1861172	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2430402	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2430403	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2487831	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2487833	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28460738	0.81[EUR][1000 genomes]
rs28499047	0.82[EUR][1000 genomes]
rs28522106	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28594689	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28691199	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28880136	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34253986	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35251562	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3795742	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3795743	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4661281	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4661282	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs5744174	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61840078	0.82[EUR][1000 genomes]
rs61840137	0.91[EUR][1000 genomes]
rs61840138	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61840140	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61840141	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61840142	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs712866	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7547359	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs851134	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs851135	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851136	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs851137	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851138	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851139	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs851178	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851179	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs851180	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851181	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851183	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851184	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851185	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs851186	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs851187	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851189	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs851190	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs851192	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs851193	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs864834	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs877327	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs887947	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012537	chr1:222755091-223512243	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv1014896	chr1:223070446-223327185	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv832659	chr1:223294767-223438487	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223277000-223306800	Weak transcription	Primary T cells from cord blood	blood
2	chr1:223297200-223307000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr1:223297200-223307000	Weak transcription	Aorta	Aorta
4	chr1:223297600-223306800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:223301000-223303800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:223302200-223303200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
7	chr1:223302200-223303200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr1:223302400-223303000	Bivalent Enhancer	Primary B cells from cord blood	blood
9	chr1:223302400-223303000	Bivalent Enhancer	Fetal Brain Male	brain
10	chr1:223302400-223303000	Enhancers	Lung	lung
11	chr1:223302400-223303000	Enhancers	Ovary	ovary
12	chr1:223302400-223303000	Enhancers	Right Ventricle	heart
13	chr1:223302400-223303200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:223302400-223303200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr1:223302400-223303200	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr1:223302400-223303200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr1:223302400-223303200	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr1:223302400-223303200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr1:223302400-223303200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr1:223302400-223303200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr1:223302400-223303200	Enhancers	Fetal Heart	heart
22	chr1:223302400-223303200	Enhancers	Pancreas	Pancrea
23	chr1:223302400-223303200	Enhancers	Placenta Amnion	Placenta Amnion
24	chr1:223302400-223303200	Genic enhancers	Spleen	Spleen
25	chr1:223302400-223304000	Bivalent Enhancer	Fetal Thymus	thymus
26	chr1:223302400-223304400	Genic enhancers	Primary neutrophils fromperipheralblood	blood
27	chr1:223302600-223303000	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr1:223302600-223303000	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr1:223302600-223303000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
30	chr1:223302600-223303000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr1:223302600-223303000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr1:223302600-223303000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr1:223302600-223303000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr1:223302600-223303000	Active TSS	Brain Cingulate Gyrus	brain
35	chr1:223302600-223303000	Genic enhancers	Esophagus	oesophagus
36	chr1:223302600-223303000	Enhancers	Left Ventricle	heart
37	chr1:223302600-223303000	Enhancers	Right Atrium	heart
38	chr1:223302600-223303000	Enhancers	Stomach Mucosa	stomach
39	chr1:223302600-223303000	Active TSS	A549	lung
40	chr1:223302600-223303000	Flanking Active TSS	K562	blood
41	chr1:223302600-223303000	Bivalent Enhancer	NHDF-Ad	bronchial
42	chr1:223302600-223303200	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr1:223302600-223303200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
44	chr1:223302600-223303200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
45	chr1:223302600-223303200	Genic enhancers	Primary monocytes fromperipheralblood	blood
46	chr1:223302600-223303200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
47	chr1:223302600-223303200	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr1:223302600-223303200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr1:223302600-223303200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr1:223302600-223303200	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links