Variant report

Variant	rs9877953
Chromosome Location	chr3:89295480-89295481
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1040017	0.92[CEU][hapmap]
rs11128072	0.92[CEU][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11923303	0.80[EUR][1000 genomes]
rs13076853	0.83[EUR][1000 genomes]
rs13083092	0.92[YRI][hapmap];0.84[AFR][1000 genomes]
rs13088663	0.83[EUR][1000 genomes]
rs13100388	0.81[EUR][1000 genomes]
rs1398532	0.83[EUR][1000 genomes]
rs1398535	0.92[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1512907	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1512910	0.92[CEU][hapmap]
rs1512912	0.96[CEU][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1567732	0.92[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17800641	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28675360	0.81[EUR][1000 genomes]
rs28885734	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35173319	0.81[EUR][1000 genomes]
rs35448293	0.82[EUR][1000 genomes]
rs35511518	0.82[EUR][1000 genomes]
rs4132275	0.91[YRI][hapmap]
rs4449340	0.92[CEU][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4857496	0.96[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6551409	0.96[CEU][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6768381	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs6770978	0.96[CEU][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6771336	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6771477	0.96[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6779902	0.80[AFR][1000 genomes]
rs6793727	0.95[YRI][hapmap]
rs6802483	0.81[YRI][hapmap]
rs7428532	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7432948	0.91[YRI][hapmap];0.82[AFR][1000 genomes]
rs7619025	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7644070	0.96[CEU][hapmap]
rs7646842	0.91[YRI][hapmap]
rs7647240	0.82[YRI][hapmap]
rs872976	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs907712	0.92[CEU][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9310117	0.96[CEU][hapmap];0.86[YRI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9310119	0.81[EUR][1000 genomes]
rs9310120	0.80[EUR][1000 genomes]
rs9310121	0.96[CEU][hapmap]
rs954964	0.85[EUR][1000 genomes]
rs9809011	0.92[CEU][hapmap];0.83[YRI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9809046	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9810366	0.82[YRI][hapmap]
rs9811041	0.89[CEU][hapmap]
rs9817310	0.96[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9817553	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs9833400	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs9833437	0.85[AFR][1000 genomes]
rs9837346	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9838512	0.96[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9845870	0.92[CEU][hapmap];0.81[YRI][hapmap]
rs9846844	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs9853389	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9866945	0.92[CEU][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9866959	0.96[CEU][hapmap]
rs9867299	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9873281	0.91[YRI][hapmap];0.84[AFR][1000 genomes]
rs9879028	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs994129	0.92[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9990016	0.96[CEU][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv437866	chr3:89247881-89480265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv590921	chr3:89294149-89392778	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89293800-89296400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:89293800-89297400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:89294000-89296200	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr3:89294000-89296200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:89294000-89296400	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:89294000-89296800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr3:89294200-89296800	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr3:89294600-89296200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr3:89295000-89296200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
10	chr3:89295400-89296200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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