Variant report

Variant	rs6469928
Chromosome Location	chr8:90246015-90246016
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10103974	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10808511	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10955980	0.86[EUR][1000 genomes]
rs10955981	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10955982	0.89[EUR][1000 genomes]
rs10955983	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11985299	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12541334	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12544184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12544284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12544420	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12544874	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12547425	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12547629	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12548260	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12549626	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12676723	0.83[EUR][1000 genomes]
rs12680830	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1479907	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16893311	1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16893577	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16893581	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1905320	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2167310	0.96[ASN][1000 genomes]
rs2338694	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28463376	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28493365	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs318285	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs57319541	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs58701424	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59583486	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59776336	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60997794	0.83[EUR][1000 genomes]
rs62532521	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62532535	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62532536	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62532541	0.94[ASN][1000 genomes]
rs6469929	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6994681	0.80[EUR][1000 genomes]
rs6999851	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7015077	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7015317	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7813237	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7817834	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7829316	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7835496	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7836610	0.83[EUR][1000 genomes]
rs7841476	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9642853	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv465735	chr8:89760311-90729507	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv611714	chr8:89760311-90729507	Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv1024956	chr8:90104423-90459539	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv539671	chr8:90104423-90459539	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1034759	chr8:90152834-90252502	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:90245600-90246200	Enhancers	Primary T helper naive cells from peripheral blood	blood
2	chr8:90245600-90246200	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr8:90245800-90246200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
4	chr8:90245800-90246200	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
5	chr8:90245800-90246200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr8:90245800-90246200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr8:90246000-90250000	Weak transcription	Primary T cells from cord blood	blood

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