Variant report

Variant	rs28406601
Chromosome Location	chr9:8282073-8282074
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10116379	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10119545	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10122381	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10758947	0.82[EUR][1000 genomes]
rs10758948	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10758950	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10815816	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10815817	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10976910	0.80[AMR][1000 genomes]
rs10976917	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10976918	0.86[ASN][1000 genomes]
rs10976921	0.84[ASN][1000 genomes]
rs10976922	0.84[ASN][1000 genomes]
rs10976923	0.84[ASN][1000 genomes]
rs1157099	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12551273	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12551280	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs12552574	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1392507	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1392508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1392509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1472534	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1472535	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1472536	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1500304	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1500305	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1500307	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1500308	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1546256	0.88[AMR][1000 genomes]
rs1875240	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1875241	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1909760	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2173709	0.80[AMR][1000 genomes]
rs3843578	0.82[ASN][1000 genomes]
rs3847283	0.81[AMR][1000 genomes]
rs3847284	0.81[AMR][1000 genomes]
rs3847285	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3858056	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3858057	0.83[ASN][1000 genomes]
rs4084051	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6477290	0.81[ASN][1000 genomes]
rs7020531	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7021246	0.82[EUR][1000 genomes]
rs7024924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7031618	0.80[AMR][1000 genomes]
rs7032230	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7035886	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7042655	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7042696	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7860127	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7860201	0.82[AMR][1000 genomes]
rs7860372	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7862136	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7864876	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7865119	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7872167	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7872172	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7872818	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7872830	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs950832	0.88[AFR][1000 genomes]
rs989932	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 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	nsv1016723	chr9:8223541-8303017	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
3	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
4	nsv892223	chr9:8258921-8318948	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS	miRNA target site	n/a	inside rSNPs	diseases
5	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
6	esv2761490	chr9:8278669-8283494	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
7	esv3481878	chr9:8280765-8286383	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
8	esv3481879	chr9:8280808-8286337	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
9	esv3481880	chr9:8280808-8286337	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
10	esv2755828	chr9:8280950-8284789	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
11	esv3693016	chr9:8280950-8284965	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8276000-8284600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:8281200-8282400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr9:8281400-8282400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:8281800-8282200	Enhancers	Fetal Intestine Large	intestine
5	chr9:8282000-8286200	Weak transcription	Fetal Intestine Small	intestine

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