Variant report

Variant	rs10976960
Chromosome Location	chr9:8330008-8330009
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10758952	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10758954	0.81[ASN][1000 genomes]
rs10815822	0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10976953	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10976962	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11521513	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11521514	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11524180	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12551994	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12555185	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12682697	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12682993	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12684196	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12684395	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12684864	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12685966	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16927547	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2173711	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3739579	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3780336	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3847288	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3847291	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4008212	0.82[EUR][1000 genomes]
rs4008216	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60965360	0.80[ASN][1000 genomes]
rs7042854	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72710309	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7848455	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7848705	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7848818	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7854665	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[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	nsv892224	chr9:8263737-8338431	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8312200-8338200	Weak transcription	Brain Angular Gyrus	brain
2	chr9:8323400-8341600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:8323800-8341600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr9:8324000-8345000	Weak transcription	Fetal Brain Male	brain
5	chr9:8324400-8337400	Weak transcription	Brain Germinal Matrix	brain
6	chr9:8326400-8331000	Weak transcription	Fetal Kidney	kidney
7	chr9:8326800-8337400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr9:8327200-8338000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:8328000-8338000	Weak transcription	Dnd41	blood
10	chr9:8328200-8338600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr9:8328400-8330200	Strong transcription	Fetal Muscle Leg	muscle
12	chr9:8328400-8330600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:8328800-8338200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr9:8329000-8330200	Strong transcription	Fetal Muscle Trunk	muscle
15	chr9:8329000-8330600	Strong transcription	Fetal Lung	lung
16	chr9:8329200-8330200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr9:8329200-8330200	Enhancers	Gastric	stomach
18	chr9:8329200-8330200	Enhancers	Stomach Mucosa	stomach
19	chr9:8329200-8330400	Strong transcription	Fetal Brain Female	brain
20	chr9:8329200-8330400	Strong transcription	Fetal Stomach	stomach
21	chr9:8329200-8331200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr9:8329200-8331400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr9:8329400-8330200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr9:8329400-8330200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:8329400-8330200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr9:8329400-8330200	Strong transcription	Brain Anterior Caudate	brain
27	chr9:8329400-8330200	Enhancers	Fetal Thymus	thymus
28	chr9:8329400-8330400	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr9:8329400-8330400	ZNF genes & repeats	HepG2	liver
30	chr9:8329600-8330200	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr9:8329600-8330200	Strong transcription	Ovary	ovary
32	chr9:8329600-8330200	Enhancers	Pancreas	Pancrea
33	chr9:8329600-8330400	Strong transcription	Brain Hippocampus Middle	brain
34	chr9:8329800-8330200	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr9:8329800-8330200	Strong transcription	Rectal Mucosa Donor 29	rectum
36	chr9:8329800-8339800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr9:8330000-8330200	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr9:8330000-8330200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
39	chr9:8330000-8330200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr9:8330000-8330600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr9:8330000-8330600	Strong transcription	Primary hematopoietic stem cells	blood
42	chr9:8330000-8337800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr9:8330000-8338000	Weak transcription	Liver	Liver
44	chr9:8330000-8338600	Weak transcription	Brain Substantia Nigra	brain
45	chr9:8330000-8348600	Weak transcription	Brain Inferior Temporal Lobe	brain

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