Variant report

Variant	rs3847286
Chromosome Location	chr9:8338878-8338879
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10115782	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10125894	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[ASN][1000 genomes]
rs10758962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10815820	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10815824	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10815825	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10815835	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10815836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10815837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10815838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10976928	0.90[ASN][1000 genomes]
rs10976929	0.90[ASN][1000 genomes]
rs10976937	0.90[ASN][1000 genomes]
rs10976939	0.90[ASN][1000 genomes]
rs10976940	0.90[ASN][1000 genomes]
rs10976941	0.90[ASN][1000 genomes]
rs10976942	0.90[ASN][1000 genomes]
rs10976949	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10976951	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10976955	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10976964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10976971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10976972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10976973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10976977	0.90[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[EUR][1000 genomes]
rs10976979	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10976982	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10976984	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10976994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10976995	0.84[ASN][1000 genomes]
rs10976996	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs10976997	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10976998	0.84[ASN][1000 genomes]
rs10976999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10977002	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10977003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10977004	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10977012	0.84[ASN][1000 genomes]
rs10977013	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10977015	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs11532964	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11535417	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11535418	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11535419	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11536769	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11560544	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11560545	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11562287	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12057000	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12236853	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12237491	0.90[ASN][1000 genomes]
rs12238522	0.90[ASN][1000 genomes]
rs12349797	1.00[CEU][hapmap]
rs12351877	0.86[EUR][1000 genomes]
rs16924671	0.90[ASN][1000 genomes]
rs16924677	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2202012	0.84[ASN][1000 genomes]
rs3736380	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56370724	0.90[ASN][1000 genomes]
rs56964282	0.90[ASN][1000 genomes]
rs59843495	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61523941	0.90[ASN][1000 genomes]
rs7033267	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73643607	0.90[ASN][1000 genomes]
rs73643608	0.90[ASN][1000 genomes]
rs73643609	0.90[ASN][1000 genomes]
rs73643610	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73643611	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7851782	0.81[AFR][1000 genomes]
rs7859123	0.84[ASN][1000 genomes]
rs7868317	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7873269	0.87[AFR][1000 genomes]
rs7874090	0.84[ASN][1000 genomes]
rs7875563	0.89[CEU][hapmap]
rs995336	0.85[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	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	esv2830193	chr9:8337939-8345923	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8323400-8341600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:8323800-8341600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:8324000-8345000	Weak transcription	Fetal Brain Male	brain
4	chr9:8329800-8339800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:8330000-8348600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr9:8330200-8339800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:8330200-8339800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr9:8330200-8340200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:8330200-8340400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr9:8330200-8340800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:8330200-8342200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr9:8330200-8364200	Weak transcription	Brain Anterior Caudate	brain
13	chr9:8330400-8340000	Weak transcription	Placenta	Placenta
14	chr9:8331400-8342000	Weak transcription	Fetal Kidney	kidney
15	chr9:8336800-8341800	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr9:8337200-8340400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr9:8337400-8339000	Enhancers	Fetal Intestine Large	intestine
18	chr9:8337400-8339000	Enhancers	Fetal Intestine Small	intestine
19	chr9:8337400-8339000	Enhancers	Pancreas	Pancrea
20	chr9:8337400-8339600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:8337400-8339600	Strong transcription	Brain Germinal Matrix	brain
22	chr9:8337400-8340200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:8337400-8340200	Strong transcription	Brain Cingulate Gyrus	brain
24	chr9:8337400-8340600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:8337400-8340800	Strong transcription	Fetal Brain Female	brain
26	chr9:8337400-8341800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr9:8337600-8340000	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr9:8337600-8340400	Strong transcription	Primary hematopoietic stem cells	blood
29	chr9:8337800-8339000	Enhancers	Adipose Nuclei	Adipose
30	chr9:8337800-8339000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr9:8337800-8339400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr9:8337800-8339600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr9:8337800-8339600	Enhancers	Ovary	ovary
34	chr9:8338000-8339000	Enhancers	Aorta	Aorta
35	chr9:8338000-8339200	Enhancers	Liver	Liver
36	chr9:8338000-8339600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
37	chr9:8338200-8339000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
38	chr9:8338200-8339000	Genic enhancers	Fetal Muscle Leg	muscle
39	chr9:8338200-8339000	Enhancers	Fetal Stomach	stomach
40	chr9:8338200-8339600	Enhancers	HUVEC	blood vessel
41	chr9:8338200-8339800	Strong transcription	Brain Hippocampus Middle	brain
42	chr9:8338600-8339200	Strong transcription	Brain Substantia Nigra	brain
43	chr9:8338600-8339400	Enhancers	Muscle Satellite Cultured Cells	--
44	chr9:8338600-8339400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr9:8338600-8339400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr9:8338600-8342000	Weak transcription	Dnd41	blood
47	chr9:8338800-8339200	Weak transcription	Fetal Lung	lung
48	chr9:8338800-8348600	Weak transcription	Brain Angular Gyrus	brain

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