Variant report

Variant	rs7856204
Chromosome Location	chr9:95173814-95173815
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 124 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10115222	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs10115290	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10116241	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10117627	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10120329	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10120980	0.84[EUR][1000 genomes]
rs10121495	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10123342	0.84[EUR][1000 genomes]
rs10123738	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10125474	0.83[EUR][1000 genomes]
rs10283572	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10429459	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10453241	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10514815	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1053441	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1053446	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10739927	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10739928	0.84[EUR][1000 genomes]
rs10761147	0.82[EUR][1000 genomes]
rs10761150	0.83[EUR][1000 genomes]
rs10761151	0.83[EUR][1000 genomes]
rs10761153	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10761154	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10761158	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10761161	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10820960	0.83[EUR][1000 genomes]
rs10820961	0.83[EUR][1000 genomes]
rs10820964	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10820965	0.84[EUR][1000 genomes]
rs10820966	0.84[EUR][1000 genomes]
rs10820967	0.86[EUR][1000 genomes]
rs10820969	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10820971	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10820986	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10820988	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10820990	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10992273	0.81[EUR][1000 genomes]
rs10992280	0.83[EUR][1000 genomes]
rs10992291	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10992303	0.84[EUR][1000 genomes]
rs10992319	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs10992322	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992340	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992347	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1121979	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1133908	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11789163	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11792342	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11795122	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12335553	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12343820	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12348488	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12353096	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1535754	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1924243	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1924244	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2007837	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2025388	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2151618	0.80[EUR][1000 genomes]
rs2236341	0.83[EUR][1000 genomes]
rs2273862	0.83[EUR][1000 genomes]
rs2274966	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2295941	0.83[EUR][1000 genomes]
rs2296666	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2296667	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2516567	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2516568	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2761679	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2761681	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3118008	1.00[ASN][1000 genomes]
rs3739606	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3758229	0.84[EUR][1000 genomes]
rs3780347	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4302908	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743874	0.81[ASN][1000 genomes]
rs4744133	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4744134	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4744135	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4744136	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6479416	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6479417	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6479418	0.84[EUR][1000 genomes]
rs6479419	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6479420	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6479423	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7020874	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7023004	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7024190	0.83[EUR][1000 genomes]
rs7026361	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7027595	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7031567	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7040949	0.81[EUR][1000 genomes]
rs7042335	0.84[EUR][1000 genomes]
rs7043152	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7045409	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7047089	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs710162	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs747629	0.81[ASN][1000 genomes]
rs7847929	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7848055	0.84[EUR][1000 genomes]
rs7850432	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7852510	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7853859	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7860774	0.90[ASN][1000 genomes]
rs7860786	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7863234	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7863406	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7864630	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7867909	0.85[EUR][1000 genomes]
rs7868640	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7869742	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7872375	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7873932	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8067	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs927865	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9299403	0.83[EUR][1000 genomes]
rs9299404	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs987554	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv1050845	chr9:94687959-95312406	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv893573	chr9:94974188-95355719	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv1047337	chr9:95105638-95347484	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1053205	chr9:95119195-95182612	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv1049599	chr9:95170139-95265558	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7856204	OGN	cis	Nerve Tibial	GTEx
rs7856204	NOL8	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95169400-95183800	Weak transcription	Aorta	Aorta
2	chr9:95169800-95175600	Weak transcription	Dnd41	blood
3	chr9:95169800-95176400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:95170000-95177600	Weak transcription	Thymus	Thymus
5	chr9:95172200-95174200	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr9:95172600-95174000	Enhancers	Hela-S3	cervix
7	chr9:95173000-95176800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:95173200-95184600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:95173200-95188400	Weak transcription	Fetal Heart	heart
10	chr9:95173400-95174200	Enhancers	GM12878-XiMat	blood
11	chr9:95173600-95174000	Enhancers	K562	blood
12	chr9:95173800-95176800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:95173800-95183400	Weak transcription	Fetal Stomach	stomach
14	chr9:95173800-95183400	Weak transcription	Ovary	ovary

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