Variant report

Variant	rs10963030
Chromosome Location	chr9:17321039-17321040
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:17317781..17319396-chr9:17320003..17322475,2	MCF-7	breast:

Extended variants
information (count: 158 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:145)

rs_ID	r²[population]
rs10756868	0.89[AFR][1000 genomes]
rs10810743	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810745	0.86[EUR][1000 genomes]
rs10810746	0.86[EUR][1000 genomes]
rs10810755	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810757	0.92[AFR][1000 genomes]
rs10810758	0.92[AFR][1000 genomes]
rs10810759	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810760	0.92[AFR][1000 genomes]
rs10810762	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10810766	0.83[AFR][1000 genomes]
rs10810767	0.81[AFR][1000 genomes]
rs10810772	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10810776	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10810780	0.89[EUR][1000 genomes]
rs10962907	0.85[ASN][1000 genomes]
rs10962944	0.83[EUR][1000 genomes]
rs10962949	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10962954	0.82[ASN][1000 genomes]
rs10962956	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10962958	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10962959	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10962993	0.85[EUR][1000 genomes]
rs10962994	0.85[EUR][1000 genomes]
rs10962996	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10962998	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10962999	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963000	0.86[EUR][1000 genomes]
rs10963001	0.83[EUR][1000 genomes]
rs10963005	0.84[EUR][1000 genomes]
rs10963015	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963017	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963018	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963019	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963022	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963025	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963031	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963034	0.90[AFR][1000 genomes]
rs10963035	0.92[AFR][1000 genomes]
rs10963036	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963039	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963040	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963041	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10963045	0.83[AFR][1000 genomes]
rs10963046	0.83[AFR][1000 genomes]
rs10963047	0.81[AFR][1000 genomes]
rs10963048	0.81[AFR][1000 genomes]
rs10963060	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10963064	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10963065	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10963069	0.89[EUR][1000 genomes]
rs10963072	0.87[EUR][1000 genomes]
rs10963073	0.94[EUR][1000 genomes]
rs10963077	0.92[EUR][1000 genomes]
rs10963078	0.91[EUR][1000 genomes]
rs11515075	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11523716	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11523726	0.85[ASN][1000 genomes]
rs11789418	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11789741	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11789786	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11791000	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11791463	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11795325	0.86[EUR][1000 genomes]
rs12156444	0.92[EUR][1000 genomes]
rs12376505	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12376938	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12376973	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12377081	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12377334	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12378677	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12379538	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12379655	0.83[EUR][1000 genomes]
rs12551355	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12553068	0.92[AFR][1000 genomes]
rs12553516	0.95[EUR][1000 genomes]
rs12555618	0.90[AFR][1000 genomes]
rs13283291	0.88[EUR][1000 genomes]
rs13283891	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13285577	0.95[EUR][1000 genomes]
rs13285704	0.95[EUR][1000 genomes]
rs13286311	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13286365	0.95[EUR][1000 genomes]
rs13287407	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13289670	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13289755	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13289968	0.95[EUR][1000 genomes]
rs13290659	0.81[EUR][1000 genomes]
rs13292365	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13292380	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13292550	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13293083	0.92[AFR][1000 genomes]
rs13301284	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1442517	0.93[EUR][1000 genomes]
rs1442528	0.92[AFR][1000 genomes]
rs17755748	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17828423	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17829280	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1953106	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2027014	0.86[EUR][1000 genomes]
rs2095156	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2151342	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2184063	0.86[EUR][1000 genomes]
rs2383013	0.86[EUR][1000 genomes]
rs34189605	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34256131	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34502029	0.86[EUR][1000 genomes]
rs34597155	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34768018	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35375281	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35409098	0.88[AFR][1000 genomes]
rs35601090	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35884270	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35968717	0.86[EUR][1000 genomes]
rs35998538	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs36051199	0.88[EUR][1000 genomes]
rs36063154	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs36077273	0.84[EUR][1000 genomes]
rs3739490	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3808791	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3808795	0.83[EUR][1000 genomes]
rs4317676	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4375098	0.86[EUR][1000 genomes]
rs4405013	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4574939	0.84[EUR][1000 genomes]
rs4626705	0.86[EUR][1000 genomes]
rs4961559	0.86[EUR][1000 genomes]
rs58474114	0.85[EUR][1000 genomes]
rs59833414	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60520802	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61565870	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62558297	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62558300	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62558301	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62558320	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62558354	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62558966	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62561379	0.88[AFR][1000 genomes]
rs7026852	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7028577	0.95[EUR][1000 genomes]
rs7041659	0.83[EUR][1000 genomes]
rs7041744	0.86[EUR][1000 genomes]
rs7042230	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7848128	0.85[AFR][1000 genomes]
rs7867175	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv2764141	chr9:16903446-17351711	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892658	chr9:17041557-17532840	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv892661	chr9:17134245-17532840	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv613693	chr9:17147191-17710407	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv471287	chr9:17165698-17708814	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv466269	chr9:17165698-17710407	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv892662	chr9:17168867-17329964	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv466270	chr9:17236376-17377629	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv613694	chr9:17236376-17377629	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv892663	chr9:17243746-17329964	ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv892665	chr9:17250170-17371690	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv613695	chr9:17273731-17348412	Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17262800-17339800	Weak transcription	Left Ventricle	heart
2	chr9:17274800-17323200	Weak transcription	Aorta	Aorta
3	chr9:17284400-17344800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr9:17292200-17367200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:17294000-17334000	Weak transcription	Fetal Stomach	stomach
6	chr9:17294000-17346000	Weak transcription	Fetal Muscle Leg	muscle
7	chr9:17301200-17332200	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr9:17308600-17322600	Weak transcription	Fetal Lung	lung
9	chr9:17313400-17333200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:17315400-17347400	Weak transcription	Colon Smooth Muscle	Colon
11	chr9:17315400-17349800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr9:17318000-17327800	Weak transcription	Liver	Liver
13	chr9:17318400-17334000	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr9:17319000-17349800	Weak transcription	Osteobl	bone
15	chr9:17319400-17349800	Weak transcription	NH-A	brain
16	chr9:17320000-17321400	Enhancers	Ovary	ovary
17	chr9:17320600-17333800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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