Variant report

Variant	rs9819762
Chromosome Location	chr3:178914879-178914880
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:178913245..178916037-chr3:178916283..178918630,2	K562	blood:

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:118)

rs_ID	r²[population]
rs1059691	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10936992	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10936994	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11706842	0.97[ASN][1000 genomes]
rs11708869	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11918324	1.00[ASN][1000 genomes]
rs11918587	0.97[ASN][1000 genomes]
rs11919383	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11922631	0.88[ASN][1000 genomes]
rs11924545	0.87[ASN][1000 genomes]
rs11924547	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11924600	0.87[ASN][1000 genomes]
rs11925655	0.97[ASN][1000 genomes]
rs12488074	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1568205	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17849071	1.00[ASN][1000 genomes]
rs1850504	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1970901	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1976765	0.97[ASN][1000 genomes]
rs2865082	1.00[ASN][1000 genomes]
rs3729674	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3729676	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3729682	1.00[ASN][1000 genomes]
rs3729694	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3960984	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3975510	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3975513	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3976507	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4080957	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4855093	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4855095	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55685804	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55933053	0.97[ASN][1000 genomes]
rs55961756	1.00[ASN][1000 genomes]
rs56095736	0.88[ASN][1000 genomes]
rs56143971	1.00[ASN][1000 genomes]
rs56372555	0.97[ASN][1000 genomes]
rs56378415	0.92[ASN][1000 genomes]
rs57299654	0.85[ASN][1000 genomes]
rs59340081	0.97[ASN][1000 genomes]
rs59408989	0.92[ASN][1000 genomes]
rs59922883	0.97[ASN][1000 genomes]
rs61796482	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61796483	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62408837	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6443619	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6443624	0.88[ASN][1000 genomes]
rs6443625	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6443626	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6443627	0.97[ASN][1000 genomes]
rs6443628	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6443629	0.90[ASN][1000 genomes]
rs67562832	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67609137	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6765953	1.00[ASN][1000 genomes]
rs6767284	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6769154	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6769162	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6769508	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6770267	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6771313	0.88[ASN][1000 genomes]
rs6774158	0.95[ASN][1000 genomes]
rs6777203	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782557	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6786114	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6791153	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67920954	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792189	0.97[ASN][1000 genomes]
rs6794252	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6797304	0.97[ASN][1000 genomes]
rs6798817	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6799756	0.97[ASN][1000 genomes]
rs6803076	0.86[ASN][1000 genomes]
rs6803219	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6806555	0.97[ASN][1000 genomes]
rs6806917	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6810246	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73051974	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73187264	1.00[ASN][1000 genomes]
rs73187276	1.00[ASN][1000 genomes]
rs7372645	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7612533	0.97[ASN][1000 genomes]
rs7614305	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7614418	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615076	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7621329	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7621436	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7623154	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7624090	1.00[ASN][1000 genomes]
rs7627273	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7628855	0.97[ASN][1000 genomes]
rs7635669	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7636454	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638323	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638649	0.97[ASN][1000 genomes]
rs7641889	0.97[ASN][1000 genomes]
rs7641983	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7644648	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7646409	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7648857	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7650809	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7651265	0.97[ASN][1000 genomes]
rs938752	0.97[ASN][1000 genomes]
rs9631497	0.92[ASN][1000 genomes]
rs9813190	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9829903	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9831234	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9833438	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9838411	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9839519	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9841051	0.90[ASN][1000 genomes]
rs9844270	0.88[ASN][1000 genomes]
rs9844482	0.88[ASN][1000 genomes]
rs9850621	0.97[ASN][1000 genomes]
rs9862294	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9866361	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9877812	0.97[ASN][1000 genomes]
rs9881887	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[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	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3354111	chr3:178833305-179156908	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 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	chr3:178897800-178919400	Weak transcription	Fetal Intestine Small	intestine
2	chr3:178899200-178951800	Weak transcription	K562	blood
3	chr3:178900000-178929800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:178904000-178918600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:178904800-178916400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:178906400-178962400	Weak transcription	HepG2	liver
7	chr3:178908000-178917600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:178908000-178918400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr3:178908000-178919800	Weak transcription	Brain Angular Gyrus	brain
10	chr3:178908000-178923600	Weak transcription	Fetal Brain Female	brain
11	chr3:178908800-178920000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:178908800-178922800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:178909000-178919800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:178909000-178931400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr3:178909000-178947000	Weak transcription	Ovary	ovary
16	chr3:178909200-178915200	Weak transcription	Stomach Mucosa	stomach
17	chr3:178909400-178918800	Weak transcription	Fetal Muscle Leg	muscle
18	chr3:178909400-178925400	Weak transcription	Aorta	Aorta
19	chr3:178910000-178919400	Weak transcription	Fetal Stomach	stomach
20	chr3:178910200-178915400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr3:178911000-178919600	Weak transcription	Placenta	Placenta
22	chr3:178911200-178953400	Weak transcription	Gastric	stomach
23	chr3:178911400-178919400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr3:178912000-178915000	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr3:178912200-178915400	Enhancers	Primary B cells from peripheral blood	blood
26	chr3:178912200-178915400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr3:178912200-178915400	Enhancers	Primary T helper cells fromperipheralblood	blood
28	chr3:178912200-178915400	Enhancers	Sigmoid Colon	Sigmoid Colon
29	chr3:178912200-178915600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr3:178912400-178915200	Enhancers	HSMM	muscle
31	chr3:178912400-178915400	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr3:178912400-178919600	Weak transcription	Spleen	Spleen
33	chr3:178912400-178924000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:178912400-178978600	Weak transcription	Right Ventricle	heart
35	chr3:178912600-178919600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr3:178912600-178947800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:178913000-178918600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr3:178913000-178919600	Weak transcription	Fetal Intestine Large	intestine
39	chr3:178913000-178925000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr3:178913000-178925400	Weak transcription	Pancreas	Pancrea
41	chr3:178913000-178930800	Weak transcription	Left Ventricle	heart
42	chr3:178913000-178948200	Weak transcription	Psoas Muscle	Psoas
43	chr3:178913200-178918600	Weak transcription	Liver	Liver
44	chr3:178913200-178945200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr3:178913200-178947000	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr3:178913200-178947000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr3:178913400-178915400	Enhancers	NHDF-Ad	bronchial
48	chr3:178913600-178915000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:178913800-178915400	Enhancers	HSMMtube	muscle
50	chr3:178913800-178916600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links