Variant report

Variant	rs7860774
Chromosome Location	chr9:95223220-95223221
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10115290	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10116241	0.92[ASN][1000 genomes]
rs10117627	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10117680	0.82[EUR][1000 genomes]
rs10118107	0.81[EUR][1000 genomes]
rs10121495	0.86[ASN][1000 genomes]
rs10125450	0.82[EUR][1000 genomes]
rs10283572	0.87[ASN][1000 genomes]
rs10429459	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10453241	0.93[ASN][1000 genomes]
rs10514815	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1053441	0.91[ASN][1000 genomes]
rs1053446	0.88[ASN][1000 genomes]
rs10739927	0.84[ASN][1000 genomes]
rs1075397	0.83[EUR][1000 genomes]
rs10761153	0.88[ASN][1000 genomes]
rs10761154	0.91[ASN][1000 genomes]
rs10761158	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10761161	0.88[ASN][1000 genomes]
rs10761164	0.82[EUR][1000 genomes]
rs10820964	0.81[ASN][1000 genomes]
rs10820969	0.86[ASN][1000 genomes]
rs10820971	0.90[ASN][1000 genomes]
rs10820989	0.82[EUR][1000 genomes]
rs10992291	0.81[ASN][1000 genomes]
rs10992322	0.90[ASN][1000 genomes]
rs10992340	0.93[ASN][1000 genomes]
rs10992347	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10992349	0.81[EUR][1000 genomes]
rs10992365	0.82[EUR][1000 genomes]
rs1133908	0.84[ASN][1000 genomes]
rs11789163	0.92[ASN][1000 genomes]
rs11795122	0.91[ASN][1000 genomes]
rs12336884	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs12338938	0.82[EUR][1000 genomes]
rs12343820	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12348488	0.81[ASN][1000 genomes]
rs12353096	0.81[ASN][1000 genomes]
rs13301492	0.82[EUR][1000 genomes]
rs13301537	0.81[EUR][1000 genomes]
rs13301652	0.82[EUR][1000 genomes]
rs1535754	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1535756	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1924243	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1924244	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2007837	0.95[ASN][1000 genomes]
rs2025388	0.88[ASN][1000 genomes]
rs2026585	0.82[EUR][1000 genomes]
rs2104533	0.82[EUR][1000 genomes]
rs2274966	0.89[ASN][1000 genomes]
rs2296666	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2296667	0.91[ASN][1000 genomes]
rs2516567	0.91[ASN][1000 genomes]
rs2761679	0.86[ASN][1000 genomes]
rs2895219	0.82[EUR][1000 genomes]
rs3118008	0.90[ASN][1000 genomes]
rs3739606	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3780347	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3927488	0.82[EUR][1000 genomes]
rs4743874	0.83[EUR][1000 genomes]
rs4744133	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4744134	0.91[ASN][1000 genomes]
rs4744135	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744136	0.88[ASN][1000 genomes]
rs4744139	0.81[EUR][1000 genomes]
rs6479416	0.84[ASN][1000 genomes]
rs6479417	0.84[ASN][1000 genomes]
rs6479419	0.86[ASN][1000 genomes]
rs6479420	0.86[ASN][1000 genomes]
rs6479423	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7020874	0.86[ASN][1000 genomes]
rs7023004	0.88[ASN][1000 genomes]
rs7026361	0.88[ASN][1000 genomes]
rs7031567	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7033979	0.81[EUR][1000 genomes]
rs7045409	0.93[ASN][1000 genomes]
rs7047089	0.86[ASN][1000 genomes]
rs710162	0.82[ASN][1000 genomes]
rs747629	0.83[EUR][1000 genomes]
rs7847929	0.90[ASN][1000 genomes]
rs7849788	0.83[EUR][1000 genomes]
rs7849927	0.81[EUR][1000 genomes]
rs7850432	0.88[ASN][1000 genomes]
rs7853859	0.90[ASN][1000 genomes]
rs7856204	0.90[ASN][1000 genomes]
rs7860786	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7863049	0.80[EUR][1000 genomes]
rs7863234	0.93[ASN][1000 genomes]
rs7863406	0.84[ASN][1000 genomes]
rs7864630	0.91[ASN][1000 genomes]
rs7868013	0.81[EUR][1000 genomes]
rs7868640	0.92[ASN][1000 genomes]
rs7869742	0.91[ASN][1000 genomes]
rs7872375	0.84[ASN][1000 genomes]
rs7872644	0.82[EUR][1000 genomes]
rs7873390	0.82[EUR][1000 genomes]
rs7873932	0.84[ASN][1000 genomes]
rs8067	0.93[ASN][1000 genomes]
rs927865	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9299404	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7860774	CENPP	cis	Esophagus Muscularis	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95217000-95225000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr9:95219000-95241600	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr9:95220200-95225600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr9:95220200-95229400	Weak transcription	Fetal Muscle Leg	muscle
5	chr9:95220200-95242400	Weak transcription	Fetal Intestine Small	intestine
6	chr9:95221200-95225400	Weak transcription	Fetal Muscle Trunk	muscle
7	chr9:95221600-95225800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:95221800-95225200	Weak transcription	Aorta	Aorta
9	chr9:95221800-95225400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr9:95221800-95226200	Weak transcription	Fetal Stomach	stomach
11	chr9:95221800-95226400	Weak transcription	Left Ventricle	heart
12	chr9:95222200-95225400	Weak transcription	Stomach Smooth Muscle	stomach

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